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<div id="bloop_customfont" style="font-family:Helvetica,Arial;font-size:13px; color: rgba(0,0,0,1.0); margin: 0px; line-height: auto;">
Hey Nathan,</div>
<div id="bloop_customfont" style="font-family:Helvetica,Arial;font-size:13px; color: rgba(0,0,0,1.0); margin: 0px; line-height: auto;">
<br>
</div>
<div id="bloop_customfont" style="font-family:Helvetica,Arial;font-size:13px; color: rgba(0,0,0,1.0); margin: 0px; line-height: auto;">
So currently there’s no way to save the profile and read it in later with this working? (The profile takes approximately forever to generate, so iterating on plotting while not in iPython is currently a p.i.t.a.)</div>
<div id="bloop_customfont" style="font-family:Helvetica,Arial;font-size:13px; color: rgba(0,0,0,1.0); margin: 0px; line-height: auto;">
<br>
</div>
<div id="bloop_customfont" style="font-family:Helvetica,Arial;font-size:13px; color: rgba(0,0,0,1.0); margin: 0px; line-height: auto;">
—Molly</div>
<br>
<div id="bloop_sign_1472496288143282944" class="bloop_sign"></div>
<br>
<p class="airmail_on">On August 29, 2016 at 2:37:56 PM, Nathan Goldbaum (<a href="mailto:nathan12343@gmail.com">nathan12343@gmail.com</a>) wrote:</p>
<blockquote type="cite" class="clean_bq"><span>
<div>
<div></div>
<div>
<title></title>
<div dir="ltr">Hi Molly,
<div><br>
</div>
<div>I think this is a bug in yt - the issue is that the field_info associated with the original profile object is not being saved to the profile dataset.</div>
<div><br>
</div>
<div>I've filed this issue here:</div>
<div><br>
</div>
<div><a href="https://bitbucket.org/yt_analysis/yt/issues/1267">https://bitbucket.org/yt_analysis/yt/issues/1267</a><br>
</div>
<div><br>
</div>
<div>For now, you should be able to create a PhasePlot using the profile object you created from the original dataset:</div>
<div><br>
</div>
<div>
<div> nhT_prof_new = yt.create_profile(sph, [('gas', 'H_number_density'),('gas','temperature')], fields='cell_mass',</div>
<div> extrema=extrema,fractional=True, n_bins=6)</div>
<div> plot = yt.PhasePlot.from_profile(nht_prof_new)</div>
</div>
<div><br>
</div>
<div>-Nathan</div>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">On Mon, Aug 29, 2016 at 12:45 PM, Molly Peeples <span dir="ltr">
<<a href="mailto:molly@stsci.edu" target="_blank">molly@stsci.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div style="word-wrap:break-word">Hi folks,
<div><br>
</div>
<div>I’m trying to construct and save a 2d profile container to make a phase plot. Here’s what I have:</div>
<div>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
nhT_prof_new = yt.create_profile(sph, [('gas', 'H_number_density'),('gas','<wbr>temperature')], fields='cell_mass', extrema=extrema,fractional=<wbr>True, n_bins=6)</p>
</div>
<div>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
nhT_prof_new.save_as_dataset()</p>
</div>
<div>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
prof_ds = yt.load("snap_047_z000p000_<wbr>Profile2D.h5")</p>
</div>
<div><br>
</div>
<div>(just using a small number of bins for now to play with…)</div>
<div><br>
</div>
<div>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#35a327">In [</span><span style="color:#2de621">115</span><span style="color:#35a327">]:</span> prof_ds.data[<span style="color:#ce7924">"temperature"</span>]</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(206,121,36);background-color:rgb(0,0,0)">
<span style="color:#35a327"> ...:</span> <span style="color:#f5f5f5">prof_ds.data[</span>"H_number_<wbr>density"<span style="color:#f5f5f5">]</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#35a327"> ...:</span> prof_ds.data[<span style="color:#ce7924">"cell_mass"</span>]</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(53,163,39);background-color:rgb(0,0,0)">
...: </p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(178,54,34);background-color:rgb(0,0,0)">
Out[<span style="color:#ff3b1d">115</span>]: </p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
YTArray([[ 0.01685665, 0.0405085 , 0.03575519, 0.03091732, 0.02552936,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
0.0230379 ],</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
[ 0.03770747, 0.05441198, 0.04859202, 0.03285325, 0.02385346,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
0.04674817],</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
[ 0.03022001, 0.05150457, 0.03591368, 0.01974481, 0.01052408,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
0.00331175],</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
[ 0.04278126, 0.01889035, 0.0177686 , 0.01644028, 0.01598129,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
0.00578262],</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
[ 0.05010083, 0.06573628, 0.04247398, 0.03914208, 0. ,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
0. ],</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
[ 0. , 0.11691224, 0. , 0. , 0. ,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
0. ]]) dimensionless</p>
</div>
<div><br>
</div>
<div>but when I try to create a PhasePlot:</div>
<div>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#35a327">In [</span><span style="color:#2de621">116</span><span style="color:#35a327">]:</span> p = yt.PhasePlot(prof_ds.data,
<span style="color:#ce7924">"H_number_density"</span>, <span style="color:#ce7924">
"temperature"</span>,<span style="color:#ce7924">"cell_mass"</span>,<wbr>weight_field=<span style="color:#35a327">None</span>)</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(53,163,39);background-color:rgb(0,0,0)">
...: </p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(195,55,32);background-color:rgb(0,0,0)">
------------------------------<wbr>------------------------------<wbr>---------------</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#c33720">KeyError</span> Traceback (most recent call last)</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(52,189,38);background-color:rgb(0,0,0)">
<ipython-input-116-<wbr>37b81d75b563> <span style="color:#f5f5f5">in</span> <span style="color:#34bbc7">
<module></span><span style="color:#5330e1">()</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(83,48,225);background-color:rgb(0,0,0)">
<span style="color:#34bd26">----> 1</span> <span style="color:#f5f5f5">p</span> =
<span style="color:#f5f5f5">yt</span>.<span style="color:#f5f5f5">PhasePlot</span>(<span style="color:#f5f5f5">prof_ds</span>.<span style="color:#f5f5f5">data</span>,"H_number_density", "temperature","cell_mass",<span style="color:#f5f5f5">weig<wbr>ht_field</span>=<span style="color:#f5f5f5">None</span>)</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0);min-height:14px">
<br>
</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(83,48,225);background-color:rgb(0,0,0)">
<span style="color:#34bd26">/Users/molly/anaconda2/envs/<wbr>astroconda/lib/python2.7/site-<wbr>packages/yt/visualization/<wbr>profile_plotter.pyc</span>
<span style="color:#f5f5f5">in</span> <span style="color:#34bbc7">__init__</span>(self, data_source, x_field, y_field, z_fields, weight_field, x_bins, y_bins, accumulation, fractional, fontsize, figure_size)</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(45,230,33);background-color:rgb(0,0,0)">
756<span style="color:#f5f5f5"> </span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 757</span> type(self)._initialize_<wbr>instance(self, data_source, profile, fontsize,</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(195,55,32);background-color:rgb(0,0,0)">
<span style="color:#34bd26">--> 758</span> figure_size)</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(45,230,33);background-color:rgb(0,0,0)">
759<span style="color:#f5f5f5"> </span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 760</span> <span style="color:#5330e1">@</span>classmethod</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0);min-height:14px">
<br>
</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(52,189,38);background-color:rgb(0,0,0)">
/Users/molly/anaconda2/envs/<wbr>astroconda/lib/python2.7/site-<wbr>packages/yt/visualization/<wbr>profile_plotter.pyc
<span style="color:#f5f5f5">in</span> <span style="color:#34bbc7">_initialize_instance</span><span style="color:#5330e1">(cls, obj, data_source, profile, fontsize, figure_size)</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 773</span> obj<span style="color:#5330e1">.</span>profile
<span style="color:#5330e1">=</span> profile</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 774</span> super<span style="color:#5330e1">(</span>PhasePlot<span style="color:#5330e1">,</span> obj<span style="color:#5330e1">).</span>__init__<span style="color:#5330e1">(</span>data_source<span style="color:#5330e1">,</span>
figure_size<span style="color:#5330e1">,</span> fontsize<span style="color:#5330e1">)</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#34bd26">--> 775</span> <span style="color:#c33720"> </span> obj<span style="color:#5330e1">.</span>_setup_plots<span style="color:#5330e1">()</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 776</span> obj<span style="color:#5330e1">.</span>_initfinished
<span style="color:#5330e1">=</span> True</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 777</span> <span style="color:#34bd26">return</span> obj</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0);min-height:14px">
<br>
</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(52,189,38);background-color:rgb(0,0,0)">
/Users/molly/anaconda2/envs/<wbr>astroconda/lib/python2.7/site-<wbr>packages/yt/visualization/<wbr>profile_plotter.pyc
<span style="color:#f5f5f5">in</span> <span style="color:#34bbc7">_setup_plots</span><span style="color:#5330e1">(self)</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 854</span> cax <span style="color:#5330e1">
=</span> self<span style="color:#5330e1">.</span>plots<span style="color:#5330e1">[</span>f<span style="color:#5330e1">].</span>cax</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(45,230,33);background-color:rgb(0,0,0)">
855<span style="color:#f5f5f5"> </span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#34bd26">--> 856</span> <span style="color:#c33720"> </span> x_scale<span style="color:#5330e1">,</span> y_scale<span style="color:#5330e1">,</span> z_scale
<span style="color:#5330e1">=</span> self<span style="color:#5330e1">.</span>_get_field_log<span style="color:#5330e1">(</span>f<span style="color:#5330e1">,</span> self<span style="color:#5330e1">.</span>profile<span style="color:#5330e1">)</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 857</span> x_title<span style="color:#5330e1">,</span> y_title<span style="color:#5330e1">,</span> z_title
<span style="color:#5330e1">=</span> self<span style="color:#5330e1">.</span>_get_field_title<span style="color:#5330e1">(</span>f<span style="color:#5330e1">,</span> self<span style="color:#5330e1">.</span>profile<span style="color:#5330e1">)</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(45,230,33);background-color:rgb(0,0,0)">
858<span style="color:#f5f5f5"> </span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0);min-height:14px">
<br>
</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(52,189,38);background-color:rgb(0,0,0)">
/Users/molly/anaconda2/envs/<wbr>astroconda/lib/python2.7/site-<wbr>packages/yt/visualization/<wbr>profile_plotter.pyc
<span style="color:#f5f5f5">in</span> <span style="color:#34bbc7">_get_field_log</span><span style="color:#5330e1">(self, field_z, profile)</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(45,230,33);background-color:rgb(0,0,0)">
813<span style="color:#f5f5f5"> </span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 814</span> <span style="color:#34bd26">def</span> _get_field_log<span style="color:#5330e1">(</span>self<span style="color:#5330e1">,</span> field_z<span style="color:#5330e1">,</span> profile<span style="color:#5330e1">):</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#34bd26">--> 815</span> <span style="color:#c33720"> </span> zfi
<span style="color:#5330e1">=</span> profile<span style="color:#5330e1">.</span>field_info<span style="color:#5330e1">[</span>field_z<span style="color:#5330e1">]</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 816</span> <span style="color:#34bd26">if</span> self<span style="color:#5330e1">.</span>x_log
<span style="color:#34bd26">is</span> None<span style="color:#5330e1">:</span></p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#2de621"> 817</span> x_log <span style="color:#5330e1">
=</span> profile<span style="color:#5330e1">.</span>x_log</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0);min-height:14px">
<br>
</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0)">
<span style="color:#c33720">KeyError</span>: ('data', 'cell_mass')</p>
<p style="margin:0px;font-size:10px;font-family:Monaco;color:rgb(245,245,245);background-color:rgb(0,0,0);min-height:14px">
<br>
</p>
</div>
<div><br>
</div>
<div><br>
</div>
<div>Suggestions?</div>
<div><span class="HOEnZb"><font color="#888888">—Molly</font></span></div>
</div>
<br>
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