<div dir="ltr">HI Molly,<div><br></div><div>I have identified the source of this bug and will be issuing a pull request to fix it momentarily. Sorry for the inconvenience.</div><div><br></div><div>Britton</div></div><div class="gmail_extra"><br><div class="gmail_quote">On Mon, Aug 29, 2016 at 7:56 PM, Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">A workaround that seems to work for me is to manually copy over the missing field_info data:<div><br></div><div><a href="https://paste.yt-project.org/show/6792/" target="_blank">https://paste.yt-project.org/<wbr>show/6792/</a><br></div><div><br></div><div>Keep in mind that you need to do it like I did, `profile = prof_ds.profile`, and then work with that profile object from then on, because `prof_ds.profile` is a property that doesn't cache its own result, so every time you access it you get back a new profile object.</div></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">On Mon, Aug 29, 2016 at 1:41 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">
<div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
Hey Nathan,</div>
<div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
<br>
</div>
<div 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><span><font color="#888888">
<div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
<br>
</div>
<div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">
—Molly</div></font></span><div><div>
<br>
<div></div>
<br>
<p>On August 29, 2016 at 2:37:56 PM, Nathan Goldbaum (<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@gmail.com</a>) wrote:</p>
<blockquote type="cite"><span>
<div>
<div></div>
<div>
<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" target="_blank">https://bitbucket.org/yt_analy<wbr>sis/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','te<wbr>mperature')], fields='cell_mass',</div>
<div> extrema=extrema,fractional=Tru<wbr>e, n_bins=6)</div>
<div> plot = yt.PhasePlot.from_profile(nht_<wbr>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','te<wbr>mperature')], fields='cell_mass', extrema=extrema,fractional=Tru<wbr>e, 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_Pro<wbr>file2D.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_density<wbr>"<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>,weig<wbr>ht_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-116-37b81d75b56<wbr>3> <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_n<wbr>umber_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/as<wbr>troconda/lib/python2.7/site-pa<wbr>ckages/yt/visualization/profil<wbr>e_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_instanc<wbr>e(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/as<wbr>troconda/lib/python2.7/site-pa<wbr>ckages/yt/visualization/profil<wbr>e_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/as<wbr>troconda/lib/python2.7/site-pa<wbr>ckages/yt/visualization/profil<wbr>e_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/as<wbr>troconda/lib/python2.7/site-pa<wbr>ckages/yt/visualization/profil<wbr>e_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><font color="#888888">—Molly</font></span></div>
</div>
<br>
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