<div dir="ltr"><div><div><div>Hi Nathan, <br><br></div>Thanks. I think that was the problem. I was annotating grids. I have yt 3.3.2; most recent is 3.3.3. <br></div><br>Is it possible to do so now for cylindrical grids? It might be required for my analysis at some point so, may be you could point me towards tweaking yt to get it working. <br><br></div><div>Best,<br></div>-Rahul<br><div><div><div><br><br>%matplotlib inline<br>import yt<br><br>path='super3d_hdf5_chk_0000'<br>ds = yt.load(path)<br><br>s = yt.SlicePlot(ds, "r", ["density","temperature"], center=[0,0,0])<br>s.zoom(20.0)<br>#s.annotate_grids()<br>s.show()<br>s.save('temp_data/')<br>#"""<br></div></div></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Sat, Jan 28, 2017 at 7:10 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">Hi Rahul,<div><br></div><div>I'm not able to reproduce the behavior you're seeing. The particular error you showed indicates that you are using some of the plot annotation functions that are attached to yt plot objects. Not all of these annotation functions support curvilinear geometries. Note that in principle many of these *could* be implemented, that just hasn't happened yet. Unfortunately the error doesn't say which of these functions is triggering the issue, so I can't tell that myself based on the information you've given.</div><div><br></div><div>Is there any chance you can share a minimal working example that demonstrates the issue you're having?</div><span class="HOEnZb"><font color="#888888"><div><br></div><div>-Nathan</div></font></span></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">On Sat, Jan 28, 2017 at 6:00 PM, Rahul Kashyap <span dir="ltr"><<a href="mailto:rkashyap@umassd.edu" target="_blank">rkashyap@umassd.edu</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"><div><div><div>Hi John,<br><br></div>Thanks. Below is the error along with the call back. I'm using SlicePlot function here. <br><br>s = yt.SlicePlot(ds, "z", ["density","temperature", "velocity_magnitude","pressure<wbr>"], center="max")<br><br></div>It gives me grid informations but, perhaps treats it as cartesian. The angles are in radians. <br>I have provided link to a small FLASH file where data is trivial -- <a href="https://www.dropbox.com/s/4e01kp3fsd6e3fh/super3d_hdf5_chk_0000?dl=0" target="_blank">https://www.dropbox.com/s/4e01<wbr>kp3fsd6e3fh/super3d_hdf5_chk_<wbr>0000?dl=0</a><br><br></div><div>Appreciated,<br></div>-Rahul <br><div><div><br><pre><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired">------------------------------<wbr>------------------------------<wbr>---------------</span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired">YTDataTypeUnsupported</span> Traceback (most recent call last)
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"><ipython-input-9-5ab982893667></span> in <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansicyan"><module><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">()</span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 102</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"># weight_field = ("CellMass")).save()</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 103</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired">#s.show()</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">--> 104<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"> </span>s<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">.</span>save<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">'temp_data/'</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 105</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired">#"""</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 106</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">/home/rkashyap/sw/miniconda2/l<wbr>ib/python2.7/site-packages/yt/<wbr>visualization/plot_container.p<wbr>yc</span> in <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansicyan">newfunc<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(*args, **kwargs)</span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 76</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"># it is the responsibility of _setup_plots to</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 77</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"># call args[0].run_callbacks()</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">---> 78<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"> </span>args<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">[</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansicyan">0</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">]</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">.</span>_setup_plots<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 79</span> rv <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">=</span> f<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">*</span>args<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">,</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">**</span>kwargs<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 80</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">return</span> rv<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">/home/rkashyap/sw/miniconda2/l<wbr>ib/python2.7/site-packages/yt/<wbr>visualization/plot_window.pyc</span> in <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansicyan">_setup_plots<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(self)</span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 954</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 955</span> self<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">.</span>_set_font_properties<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">--> 956<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"> </span>self<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">.</span>run_callbacks<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 957</span> self<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">.</span>_plot_valid <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">=</span> True<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 958</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">/home/rkashyap/sw/miniconda2/l<wbr>ib/python2.7/site-packages/yt/<wbr>visualization/plot_window.pyc</span> in <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansicyan">run_callbacks<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(self)</span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 1007</span> callback<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span>cbw<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 1008</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">except</span> YTDataTypeUnsupported <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">as</span> e<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">:</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">-> 1009<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired"> </span>six<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">.</span>reraise<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(</span>YTDataTypeUnsuppor<wbr>ted<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">,</span> e<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">)</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 1010</span> <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">except</span> Exception <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">as</span> e<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">:</span><span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue"></span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen"> 1011</span> six.reraise(YTPlotCallbackErro<wbr>r,
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansigreen">/home/rkashyap/sw/miniconda2/l<wbr>ib/python2.7/site-packages/six<wbr>.pyc</span> in <span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansicyan">reraise<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansiblue">(tp, value, tb)</span>
<span class="m_6079277722815669107m_4658169295806268475gmail-m_1158771848956569332gmail-ansired">YTDataTypeUnsupported</span>: This operation is not supported for data of geometry cylindrical; It supports data of geometries ('cartesian', 'spectral_cube')</span></span></span></span></span></span></span></span></span></pre><br></div></div></div><div class="gmail_extra"><br><div class="gmail_quote"><span>On Sat, Jan 28, 2017 at 6:18 PM, John ZuHone <span dir="ltr"><<a href="mailto:jzuhone@gmail.com" target="_blank">jzuhone@gmail.com</a>></span> wrote:<br></span><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="auto"><span><div>Hi Rahul,</div><div id="m_6079277722815669107m_4658169295806268475m_8852919704698477912AppleMailSignature"><br></div><div id="m_6079277722815669107m_4658169295806268475m_8852919704698477912AppleMailSignature">Could you detail exactly what the issue with yt was? We'd like to help out.</div><div id="m_6079277722815669107m_4658169295806268475m_8852919704698477912AppleMailSignature"><br></div><div id="m_6079277722815669107m_4658169295806268475m_8852919704698477912AppleMailSignature">John </div><div id="m_6079277722815669107m_4658169295806268475m_8852919704698477912AppleMailSignature"><br>Sent from my iPhone</div></span><div><div class="m_6079277722815669107m_4658169295806268475h5"><span><div><br>On Jan 28, 2017, at 3:12 PM, Rahul Kashyap <<a href="mailto:rkashyap@umassd.edu" target="_blank">rkashyap@umassd.edu</a>> wrote:<br><br></div></span><div><div class="m_6079277722815669107h5"><blockquote type="cite"><div><div dir="ltr"><div><div><div>Dear FLASH users,<br><br></div>Has anyone come up with visualizing 3D cylindrical data set by FLASH? <br><br>I tried VisIt by transforming coordinate from cylindrical to cartesian. This sets up the grid with z-coordinate from 0 to 6.28 i.e. 2*pi i.e. does not consider it as angle. <br></div>It might be that it's due to the order of coordinates used by visit which is <span><span style="font-style:italic">r,θ,z</span></span> as opposed to <span><span style="font-style:italic">r,z,θ</span></span> in FLASH. <br>yt has also not worked. <br><br></div><div>Any help is highly appreciated.<br></div><div><br></div><div>Thanks,<br></div>-Rahul<br></div>
</div></blockquote></div></div></div></div></div></blockquote></div><br></div>
</blockquote></div><br></div>
</div></div></blockquote></div><br></div>