
<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Nathan,<div class=""><br class=""></div><div class="">I do not have a 3D MHD data at hand, but I’ve tried one with slc.annotate_quiver('velocity_x', 'velocity_y'), which gives the following error:</div><div class=""><br class=""></div><div class=""><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">  File "off_axis.py", line 49, in <module></span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">    slc.save(pf.basename)</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">  File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_container.py", line 76, in newfunc</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">    args[0].run_callbacks()</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">  File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_window.py", line 1029, in run_callbacks</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">    sys.exc_info()[2])</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">  File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_window.py", line 1025, in run_callbacks</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">    callback(cbw)</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">  File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_modifications.py", line 352, in __call__</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">    (xi, yi) = (ds.coordinates.x_axis[ax],</span></div><div style="margin: 0px; line-height: normal; font-family: Menlo; color: rgb(214, 214, 214); background-color: rgb(45, 45, 45);" class=""><span style="font-variant-ligatures: no-common-ligatures" class="">yt.utilities.exceptions.YTPlotCallbackError: annotate_quiver callback failed with the following error: 4</span></div></div><div class=""><br class=""><div class="">

<div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class="">Best wishes,</div><div class="">--</div><div class="">Suoqing JI</div><div class="">Ph.D Candidate</div><div class="">Department of Physics</div><div class="">University of California, Santa Barbara</div><div class=""><a href="http://web.physics.ucsb.edu/~suoqing" class="">http://web.physics.ucsb.edu/~suoqing</a></div></div></div></div></div></div></div></div>

</div>

<br class=""><div><blockquote type="cite" class=""><div class="">On Apr 21, 2016, at 12:35 PM, Nathan Goldbaum <<a href="mailto:nathan12343@gmail.com" class="">nathan12343@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><br class=""><div class="gmail_extra"><br class=""><div class="gmail_quote">On Thu, Apr 21, 2016 at 2:30 PM, Suoqing Ji <span dir="ltr" class=""><<a href="mailto:suoqing@physics.ucsb.edu" target="_blank" class="">suoqing@physics.ucsb.edu</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word" class="">Hi Sushi,<div class=""><br class=""></div><div class="">The quiver/streamline option you’ve used works for 2d plotting but not for volume rendering, so I might suggest to use off-axis slice plot: <a href="http://yt-project.org/doc/visualizing/plots.html#off-axis-slices" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/plots.html#off-axis-slices</a></div><div class=""><br class=""></div><div class="">Unfortunately, quiver/streamline does not work (and/or does not work correctly) for off axis slice plot now, but your goal is still achievable via the following steps:</div></div></blockquote><div class=""><br class=""></div><div class="">Are you sure about that? There's a `CuttingQuiverCallback` for off-axis slices. If you do `annotate_magnetic_fields`, it will automatically choose the `CuttingQuiverCallback` for off-axis slices.</div><div class=""> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word" class=""><div class=""><br class=""></div><div class="">1. Use fixed resolution buffer to get the off-axis sliced field values including Bx, By and Bz (see this as an example, and replace SlicePlot with OffAxisSlicePlot: <a href="http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedresolutionbuffer#multi-plot-slice-and-projections" target="_blank" class="">http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedresolutionbuffer#multi-plot-slice-and-projections</a>), then you get a 2D array for each field;</div><div class=""><br class=""></div><div class="">2. Compute the magnetic field vectors projected onto the rotated viewing plane (perpendicular to your normal vector), based on field values of Bx, By and Bz; now you have two 2D arrays for each components of B field vectors after rotation;</div><div class=""><br class=""></div><div class="">3. Use quiver function in matplotlib and plot the B field vectors after rotation, see: <a href="http://matplotlib.org/examples/pylab_examples/quiver_demo.html" target="_blank" class="">http://matplotlib.org/examples/pylab_examples/quiver_demo.html</a></div></div></blockquote><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word" class=""><div class=""><br class=""></div><div class="">Hope this helps! Perhaps there’s an easier way that I do not know...</div><div class=""><span class=""><br class=""><div class="">

<div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; word-wrap: break-word;" class=""><div class="">Best wishes,</div><div class="">--</div><div class="">Suoqing JI</div><div class="">Ph.D Candidate</div><div class="">Department of Physics</div><div class="">University of California, Santa Barbara</div><div class=""><a href="http://web.physics.ucsb.edu/~suoqing" target="_blank" class="">http://web.physics.ucsb.edu/~suoqing</a></div></div></div></div></div></div></div></div>

</div>

<br class=""></span><div class=""><div class="h5"><div class=""><blockquote type="cite" class=""><div class="">On Apr 21, 2016, at 10:31 AM, Sushilkumar <<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a>> wrote:</div><br class=""><div class=""><div dir="ltr" class=""><div class=""><div class=""><div class=""><div class="">Dear yt:<br class=""><br class=""></div>I am having trouble with the camera option on yt. <br class=""><br class=""></div>The google drive link is <a href="https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc" target="_blank" class="">https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc</a><br class=""><br class=""></div>I want to change the view of the camera at an angle after the Slice (x-z plane) and Quiver option.<br class=""><br class="">My script is yt_cam_rot.py. Without the camera options I get the desired plot (UniformGridData_Slice.png) but when I use the camera  I get a empty screen. I am not sure where I am going wrong. <br class=""><br class=""></div><div class="">I am using these links for my reference<br class=""><br class=""><a href="http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-rendering-camera" target="_blank" class="">http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-rendering-camera</a><br class=""><a href="http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering" target="_blank" class="">http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering</a><br class=""></div><div class=""><br class=""></div><div class="">Thanks in advance<br class=""></div><div class=""><br class=""></div> <br class=""><br class=""><br class=""><div class=""><div class=""><div class=""><br class=""><br class=""><br class=""><br class=""><br class=""><br class=""><div class=""><br class=""><br class=""><br class=""><br class=""><br class=""><div class=""><div class="gmail_extra"><br class=""><div class="gmail_quote">On Fri, Apr 15, 2016 at 4:49 PM, Sushilkumar <span dir="ltr" class=""><<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div dir="ltr" class=""><div class="">Dear Suoqing JI:<br class=""><br class=""></div>Thank you <br class=""></div><div class="gmail_extra"><div class=""><div class=""><br class=""><div class="gmail_quote">On Fri, Apr 15, 2016 at 12:59 PM,  <span dir="ltr" class=""><<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Send yt-users mailing list submissions to<br class="">

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Today's Topics:<br class="">

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   1. Re: Camera Options (Suoqing Ji)<br class="">

<br class="">

<br class="">

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<br class="">

Message: 1<br class="">

Date: Fri, 15 Apr 2016 10:59:22 -0700<br class="">

From: Suoqing Ji <<a href="mailto:suoqing@physics.ucsb.edu" target="_blank" class="">suoqing@physics.ucsb.edu</a>><br class="">

To: Discussion of the yt analysis package<br class="">

        <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

Subject: Re: [yt-users] Camera Options<br class="">

Message-ID: <<a href="mailto:B885F215-5F0A-49D5-9712-2D8FCEAA1366@physics.ucsb.edu" target="_blank" class="">B885F215-5F0A-49D5-9712-2D8FCEAA1366@physics.ucsb.edu</a>><br class="">

Content-Type: text/plain; charset="utf-8"<br class="">

<br class="">

Hi Sushi,<br class="">

<br class="">

I think the off-axis slice/projection plot will meet your requirement best, where the camera orientation is determined by the normal vector:<br class="">

<br class="">

<a href="http://yt-project.org/doc/visualizing/plots.html#off-axis-slices" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/plots.html#off-axis-slices</a> <<a href="http://yt-project.org/doc/visualizing/plots.html#off-axis-slices" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/plots.html#off-axis-slices</a>><br class="">

<a href="http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots</a> <<a href="http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots</a>><br class="">

<br class="">

And of course, if you?re interested in the features provided by volume rendering, it?s also worth a try. This cookbook gives an example of moving a camera; specifically you might want to use the camera.rotation:<br class="">

<br class="">

<a href="http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-rendering-camera" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-rendering-camera</a> <<a href="http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-rendering-camera" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-rendering-camera</a>><br class="">

<br class="">

Best wishes,<br class="">

--<br class="">

Suoqing JI<br class="">

Ph.D Candidate<br class="">

Department of Physics<br class="">

University of California, Santa Barbara<br class="">

<a href="http://web.physics.ucsb.edu/~suoqing" rel="noreferrer" target="_blank" class="">http://web.physics.ucsb.edu/~suoqing</a><br class="">

<br class="">

> On Apr 15, 2016, at 8:38 AM, Sushilkumar <<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a>> wrote:<br class="">

><br class="">

> Dear yt:<br class="">

><br class="">

> I would like to change/customize/rotate my camera angle for my slice plots without rotating the axis.<br class="">

><br class="">

> What options do I have using yt if I want to move my camera angle by say 45 degrees?<br class="">

><br class="">

> Can I use the following link or can you suggest me something else<br class="">

> <a href="http://yt-project.org/doc/visualizing/volume_rendering.html" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/volume_rendering.html</a> <<a href="http://yt-project.org/doc/visualizing/volume_rendering.html" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/volume_rendering.html</a>><br class="">

><br class="">

> Thanks in advance<br class="">

><br class="">

><br class="">

><br class="">

> On Thu, Mar 31, 2016 at 10:11 PM, <<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>>> wrote:<br class="">

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><br class="">

> When replying, please edit your Subject line so it is more specific<br class="">

> than "Re: Contents of yt-users digest..."<br class="">

><br class="">

><br class="">

> Today's Topics:<br class="">

><br class="">

>    1. Inclination problem (Sushilkumar)<br class="">

><br class="">

><br class="">

> ----------------------------------------------------------------------<br class="">

><br class="">

> Message: 1<br class="">

> Date: Thu, 31 Mar 2016 22:11:09 -0500<br class="">

> From: Sushilkumar <<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a> <mailto:<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a>>><br class="">

> To: Discussion of the yt analysis package<br class="">

>         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> Subject: [yt-users] Inclination problem<br class="">

> Message-ID:<br class="">

>         <<a href="mailto:CAKARaKXPyQedHNjW0PwFvrO0qyjFGY4FMU6c2O5_PZWt-OxKEg@mail.gmail.com" target="_blank" class="">CAKARaKXPyQedHNjW0PwFvrO0qyjFGY4FMU6c2O5_PZWt-OxKEg@mail.gmail.com</a> <mailto:<a href="mailto:CAKARaKXPyQedHNjW0PwFvrO0qyjFGY4FMU6c2O5_PZWt-OxKEg@mail.gmail.com" target="_blank" class="">CAKARaKXPyQedHNjW0PwFvrO0qyjFGY4FMU6c2O5_PZWt-OxKEg@mail.gmail.com</a>>><br class="">

> Content-Type: text/plain; charset="utf-8"<br class="">

><br class="">

> Dear Nathan:<br class="">

><br class="">

> Thank you very much, implementing now<br class="">

><br class="">

><br class="">

> On Thu, Mar 31, 2016 at 9:50 AM, <<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>>><br class="">

> wrote:<br class="">

><br class="">

> > Send yt-users mailing list submissions to<br class="">

> >         <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> ><br class="">

> > To subscribe or unsubscribe via the World Wide Web, visit<br class="">

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> > or, via email, send a message with subject or body 'help' to<br class="">

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> ><br class="">

> > You can reach the person managing the list at<br class="">

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> ><br class="">

> > When replying, please edit your Subject line so it is more specific<br class="">

> > than "Re: Contents of yt-users digest..."<br class="">

> ><br class="">

> ><br class="">

> > Today's Topics:<br class="">

> ><br class="">

> >    1. Re: Inclination problem (Nathan Goldbaum)<br class="">

> ><br class="">

> ><br class="">

> > ----------------------------------------------------------------------<br class="">

> ><br class="">

> > Message: 1<br class="">

> > Date: Thu, 31 Mar 2016 09:50:31 -0500<br class="">

> > From: Nathan Goldbaum <<a href="mailto:nathan12343@gmail.com" target="_blank" class="">nathan12343@gmail.com</a> <mailto:<a href="mailto:nathan12343@gmail.com" target="_blank" class="">nathan12343@gmail.com</a>>><br class="">

> > To: Discussion of the yt analysis package<br class="">

> >         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> > Subject: Re: [yt-users] Inclination problem<br class="">

> > Message-ID:<br class="">

> >         <CAJXewOnvXjZ+shfKG4SPubn_TYTAbLUu8y9ZRvovzBu=<br class="">

> > <a href="mailto:DcFZtQ@mail.gmail.com" target="_blank" class="">DcFZtQ@mail.gmail.com</a> <mailto:<a href="mailto:DcFZtQ@mail.gmail.com" target="_blank" class="">DcFZtQ@mail.gmail.com</a>>><br class="">

> > Content-Type: text/plain; charset="utf-8"<br class="">

> ><br class="">

> > Hi SK,<br class="">

> ><br class="">

> > I'm going to reference this example:<br class="">

> ><br class="">

> ><br class="">

> > <a href="http://yt-project.org/doc/visualizing/streamlines.html?highlight=streamlines" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/streamlines.html?highlight=streamlines</a> <<a href="http://yt-project.org/doc/visualizing/streamlines.html?highlight=streamlines" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/visualizing/streamlines.html?highlight=streamlines</a>><br class="">

> ><br class="">

> > specifically this snippet:<br class="">

> ><br class="">

> > for stream in streamlines.streamlines:<br class="">

> >     stream = stream[np.all(stream != 0.0, axis=1)]<br class="">

> >     ax.plot3D(stream[:,0], stream[:,1], stream[:,2], alpha=0.1)<br class="">

> ><br class="">

> > Here, the 'stream' object is just a Nx3 numpy array, where N is the number<br class="">

> > of points sampled along the streamline. So each row of the numpy array is<br class="">

> > just the coordinates of the streamline along one direction.<br class="">

> ><br class="">

> > To answer your question, no, there's nothing in yt that will rotate the<br class="">

> > streamlines into a new coordinate system. Fortunately you should be able to<br class="">

> > do it yourself using e.g. an Euler angle rotation matrix. You will need to<br class="">

> > identify the new coordinate system you would like to transform to,<br class="">

> > calculate a 3D rotation matrix, then apply it using matrix multiplication<br class="">

> > (e.g. np.dot, which supports broadcasting) to each coordinate along the<br class="">

> > streamline.<br class="">

> ><br class="">

> > Hope that helps,<br class="">

> ><br class="">

> > Nathan<br class="">

> ><br class="">

> > On Thu, Mar 31, 2016 at 8:56 AM, Sushilkumar <<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a> <mailto:<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a>>><br class="">

> > wrote:<br class="">

> ><br class="">

> > > Dear Matt:<br class="">

> > ><br class="">

> > > Pleas correct me if I am wrong but "off axis slices" takes slices of the<br class="">

> > > plot that is already plotted.<br class="">

> > ><br class="">

> > > However, I would like to plot my data in a new coordinate frame<br class="">

> > (x`,y`,z`)<br class="">

> > > which is inclined at an angle of say alpha from the default (x,y,z)<br class="">

> > frame.<br class="">

> > ><br class="">

> > > Or I would like to plot my data in a rotated frame (x`,y`,z`), which is<br class="">

> > > rotated at an angle of alpha from (x,y,z).<br class="">

> > ><br class="">

> > ><br class="">

> > ><br class="">

> > ><br class="">

> > > On Wed, Mar 30, 2016 at 5:01 PM, <<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>>><br class="">

> > > wrote:<br class="">

> > ><br class="">

> > >> Send yt-users mailing list submissions to<br class="">

> > >>         <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >><br class="">

> > >> To subscribe or unsubscribe via the World Wide Web, visit<br class="">

> > >>         <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> or, via email, send a message with subject or body 'help' to<br class="">

> > >>         <a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>><br class="">

> > >><br class="">

> > >> You can reach the person managing the list at<br class="">

> > >>         <a href="mailto:yt-users-owner@lists.spacepope.org" target="_blank" class="">yt-users-owner@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-owner@lists.spacepope.org" target="_blank" class="">yt-users-owner@lists.spacepope.org</a>><br class="">

> > >><br class="">

> > >> When replying, please edit your Subject line so it is more specific<br class="">

> > >> than "Re: Contents of yt-users digest..."<br class="">

> > >><br class="">

> > >><br class="">

> > >> Today's Topics:<br class="">

> > >><br class="">

> > >>    1. Re: load spherical polar coordinate data with mesh refinement<br class="">

> > >>       in HDF5 (Jiang, Yanfei)<br class="">

> > >>    2. Re: load spherical polar coordinate data with mesh refinement<br class="">

> > >>       in HDF5 (Matthew Turk)<br class="">

> > >>    3. Re: Inclination problem (Matthew Turk)<br class="">

> > >>    4. Re: load spherical polar coordinate data with mesh refinement<br class="">

> > >>       in HDF5 (Jonah Miller)<br class="">

> > >><br class="">

> > >><br class="">

> > >> ----------------------------------------------------------------------<br class="">

> > >><br class="">

> > >> Message: 1<br class="">

> > >> Date: Wed, 30 Mar 2016 15:49:26 -0400<br class="">

> > >> From: "Jiang, Yanfei" <<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a> <mailto:<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a>>><br class="">

> > >> To: Discussion of the yt analysis package<br class="">

> > >>         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> > >> Subject: Re: [yt-users] load spherical polar coordinate data with mesh<br class="">

> > >>         refinement in HDF5<br class="">

> > >> Message-ID:<br class="">

> > >>         <<br class="">

> > >> <a href="mailto:CANixPav-VmbXfhNvmA5wb5gj19mF%2B-Ryq5YD-LrYrByDe3Ne7A@mail.gmail.com" target="_blank" class="">CANixPav-VmbXfhNvmA5wb5gj19mF+-Ryq5YD-LrYrByDe3Ne7A@mail.gmail.com</a> <mailto:<a href="mailto:CANixPav-VmbXfhNvmA5wb5gj19mF%252B-Ryq5YD-LrYrByDe3Ne7A@mail.gmail.com" target="_blank" class="">CANixPav-VmbXfhNvmA5wb5gj19mF%2B-Ryq5YD-LrYrByDe3Ne7A@mail.gmail.com</a>>><br class="">

> > >> Content-Type: text/plain; charset="utf-8"<br class="">

> > >><br class="">

> > >> Hi Jonah,<br class="">

> > >><br class="">

> > >>    I am able to load the data to yt now using load_amr_grids(). I notice<br class="">

> > >> that it can also set geometry to spherical. This is great. But to make<br class="">

> > >> life<br class="">

> > >> more complicate. Is it possible to let yt know that the grid is<br class="">

> > >> logarithmic? Currently, load_amr_grids() just take left and right edges<br class="">

> > of<br class="">

> > >> each block. I guess yt assumes the grid is uniform between left and<br class="">

> > right<br class="">

> > >> edges. Is it possible to provide arrays of coordinate values for each<br class="">

> > cell<br class="">

> > >> in each block?<br class="">

> > >><br class="">

> > >> Thanks.<br class="">

> > >><br class="">

> > >> On Tue, Mar 29, 2016 at 6:58 PM, Jonah Miller <<br class="">

> > >> <a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a> <mailto:<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a>>> wrote:<br class="">

> > >><br class="">

> > >> > Hi Yan-Feng,<br class="">

> > >> ><br class="">

> > >> > I haven't tried it, but I think there is functionality for this. You<br class="">

> > can<br class="">

> > >> > use the load_amr_grids() function which can load amr data in<br class="">

> > Cartesian,<br class="">

> > >> > spherical, or polar coordinates. Here's the documentation:<br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array</a> <<a href="http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array</a>><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids</a> <<a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids</a>><br class="">

> > >> ><br class="">

> > >> > Best,<br class="">

> > >> > Jonah<br class="">

> > >> ><br class="">

> > >> > On Tue, Mar 29, 2016, 6:35 PM Jiang, Yanfei <<br class="">

> > >> <a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a> <mailto:<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a>>><br class="">

> > >> > wrote:<br class="">

> > >> ><br class="">

> > >> >> Hi,<br class="">

> > >> >>          I have some data from a new version of Athena simulations.<br class="">

> > It<br class="">

> > >> is<br class="">

> > >> >> in spherical polar coordinate with mesh refinement written in HDF5.<br class="">

> > The<br class="">

> > >> >> data structure is similar to flash data but not the same. Does anyone<br class="">

> > >> have<br class="">

> > >> >> suggestions to load such data to yt directly?<br class="">

> > >> >><br class="">

> > >> >> Thank you.<br class="">

> > >> >> --<br class="">

> > >> >> Yan-Fei Jiang<br class="">

> > >> >><br class="">

> > >> >> Einstein Fellow<br class="">

> > >> >> Harvard-Smithsonian Center for Astrophysics<br class="">

> > >> >> 60 Garden Street, Cambridge MA USA 02138<br class="">

> > >> >> _______________________________________________<br class="">

> > >> >> yt-users mailing list<br class="">

> > >> >> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> ><br class="">

> > >> > _______________________________________________<br class="">

> > >> > yt-users mailing list<br class="">

> > >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >><br class="">

> > >><br class="">

> > >> --<br class="">

> > >> Yan-Fei Jiang<br class="">

> > >><br class="">

> > >> Einstein Fellow<br class="">

> > >> Harvard-Smithsonian Center for Astrophysics<br class="">

> > >> 60 Garden Street, Cambridge MA USA 02138<br class="">

> > >> -------------- next part --------------<br class="">

> > >> An HTML attachment was scrubbed...<br class="">

> > >> URL: <<br class="">

> > >><br class="">

> > <a href="http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160330/aedc3b19/attachment-0001.htm" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160330/aedc3b19/attachment-0001.htm</a> <<a href="http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160330/aedc3b19/attachment-0001.htm" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160330/aedc3b19/attachment-0001.htm</a>><br class="">

> > >> ><br class="">

> > >><br class="">

> > >> ------------------------------<br class="">

> > >><br class="">

> > >> Message: 2<br class="">

> > >> Date: Wed, 30 Mar 2016 16:15:30 -0500<br class="">

> > >> From: Matthew Turk <<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a> <mailto:<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a>>><br class="">

> > >> To: Discussion of the yt analysis package<br class="">

> > >>         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> > >> Subject: Re: [yt-users] load spherical polar coordinate data with mesh<br class="">

> > >>         refinement in HDF5<br class="">

> > >> Message-ID:<br class="">

> > >>         <CALO3=<br class="">

> > >> <a href="mailto:5F1-_9V5XHS4vF_eXvKoPerz3Zo20X8uPtcFjQSAQS1MA@mail.gmail.com" target="_blank" class="">5F1-_9V5XHS4vF_eXvKoPerz3Zo20X8uPtcFjQSAQS1MA@mail.gmail.com</a> <mailto:<a href="mailto:5F1-_9V5XHS4vF_eXvKoPerz3Zo20X8uPtcFjQSAQS1MA@mail.gmail.com" target="_blank" class="">5F1-_9V5XHS4vF_eXvKoPerz3Zo20X8uPtcFjQSAQS1MA@mail.gmail.com</a>>><br class="">

> > >> Content-Type: text/plain; charset=UTF-8<br class="">

> > >><br class="">

> > >> Hi Yanfei,<br class="">

> > >><br class="">

> > >> This is possible -- but it will also slow some things down.  You can<br class="">

> > >> use the load_hexahedral_mesh function, and there're examples of this.<br class="">

> > >> This takes away some of the optimizations that regular grids can do,<br class="">

> > >> but we're hoping to add them back in shortly.  Like the other<br class="">

> > >> functions it too takes a geometry argument.<br class="">

> > >><br class="">

> > >> -Matt<br class="">

> > >><br class="">

> > >> On Wed, Mar 30, 2016 at 2:49 PM, Jiang, Yanfei<br class="">

> > >> <<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a> <mailto:<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a>>> wrote:<br class="">

> > >> > Hi Jonah,<br class="">

> > >> ><br class="">

> > >> >    I am able to load the data to yt now using load_amr_grids(). I<br class="">

> > notice<br class="">

> > >> > that it can also set geometry to spherical. This is great. But to make<br class="">

> > >> life<br class="">

> > >> > more complicate. Is it possible to let yt know that the grid is<br class="">

> > >> logarithmic?<br class="">

> > >> > Currently, load_amr_grids() just take left and right edges of each<br class="">

> > >> block. I<br class="">

> > >> > guess yt assumes the grid is uniform between left and right edges. Is<br class="">

> > it<br class="">

> > >> > possible to provide arrays of coordinate values for each cell in each<br class="">

> > >> block?<br class="">

> > >> ><br class="">

> > >> > Thanks.<br class="">

> > >> ><br class="">

> > >> > On Tue, Mar 29, 2016 at 6:58 PM, Jonah Miller<br class="">

> > >> > <<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a> <mailto:<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a>>> wrote:<br class="">

> > >> >><br class="">

> > >> >> Hi Yan-Feng,<br class="">

> > >> >><br class="">

> > >> >> I haven't tried it, but I think there is functionality for this. You<br class="">

> > >> can<br class="">

> > >> >> use the load_amr_grids() function which can load amr data in<br class="">

> > Cartesian,<br class="">

> > >> >> spherical, or polar coordinates. Here's the documentation:<br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array</a> <<a href="http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array</a>><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids</a> <<a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids</a>><br class="">

> > >> >><br class="">

> > >> >> Best,<br class="">

> > >> >> Jonah<br class="">

> > >> >><br class="">

> > >> >> On Tue, Mar 29, 2016, 6:35 PM Jiang, Yanfei <<br class="">

> > >> <a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a> <mailto:<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a>>><br class="">

> > >> >> wrote:<br class="">

> > >> >>><br class="">

> > >> >>> Hi,<br class="">

> > >> >>>          I have some data from a new version of Athena simulations.<br class="">

> > >> It is<br class="">

> > >> >>> in spherical polar coordinate with mesh refinement written in HDF5.<br class="">

> > >> The data<br class="">

> > >> >>> structure is similar to flash data but not the same. Does anyone<br class="">

> > have<br class="">

> > >> >>> suggestions to load such data to yt directly?<br class="">

> > >> >>><br class="">

> > >> >>> Thank you.<br class="">

> > >> >>> --<br class="">

> > >> >>> Yan-Fei Jiang<br class="">

> > >> >>><br class="">

> > >> >>> Einstein Fellow<br class="">

> > >> >>> Harvard-Smithsonian Center for Astrophysics<br class="">

> > >> >>> 60 Garden Street, Cambridge MA USA 02138<br class="">

> > >> >>> _______________________________________________<br class="">

> > >> >>> yt-users mailing list<br class="">

> > >> >>> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >>> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >> _______________________________________________<br class="">

> > >> >> yt-users mailing list<br class="">

> > >> >> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> > --<br class="">

> > >> > Yan-Fei Jiang<br class="">

> > >> ><br class="">

> > >> > Einstein Fellow<br class="">

> > >> > Harvard-Smithsonian Center for Astrophysics<br class="">

> > >> > 60 Garden Street, Cambridge MA USA 02138<br class="">

> > >> ><br class="">

> > >> > _______________________________________________<br class="">

> > >> > yt-users mailing list<br class="">

> > >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> ><br class="">

> > >><br class="">

> > >><br class="">

> > >> ------------------------------<br class="">

> > >><br class="">

> > >> Message: 3<br class="">

> > >> Date: Wed, 30 Mar 2016 16:16:22 -0500<br class="">

> > >> From: Matthew Turk <<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a> <mailto:<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a>>><br class="">

> > >> To: Discussion of the yt analysis package<br class="">

> > >>         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> > >> Subject: Re: [yt-users] Inclination problem<br class="">

> > >> Message-ID:<br class="">

> > >>         <CALO3=5HMB=<br class="">

> > >> <a href="mailto:joejr6BBh%2BzdxkwGzJS2NPrkK9tvMJnbch5-7BgQ@mail.gmail.com" target="_blank" class="">joejr6BBh+zdxkwGzJS2NPrkK9tvMJnbch5-7BgQ@mail.gmail.com</a> <mailto:<a href="mailto:joejr6BBh%252BzdxkwGzJS2NPrkK9tvMJnbch5-7BgQ@mail.gmail.com" target="_blank" class="">joejr6BBh%2BzdxkwGzJS2NPrkK9tvMJnbch5-7BgQ@mail.gmail.com</a>>><br class="">

> > >> Content-Type: text/plain; charset=UTF-8<br class="">

> > >><br class="">

> > >> Hi SK,<br class="">

> > >><br class="">

> > >> I'm not sure I totally understand, but if you have an inclination<br class="">

> > >> angle you can use this directly in yt in the off axis slices and so<br class="">

> > >> on.  They typically take a vector, but you should be able to convert<br class="">

> > >> one to the other.<br class="">

> > >><br class="">

> > >> -Matt<br class="">

> > >><br class="">

> > >> On Tue, Mar 29, 2016 at 1:37 PM, Sushilkumar <<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a> <mailto:<a href="mailto:sushil.sush19us@gmail.com" target="_blank" class="">sushil.sush19us@gmail.com</a>><br class="">

> > ><br class="">

> > >> wrote:<br class="">

> > >> > Dear yt:<br class="">

> > >> ><br class="">

> > >> > I am trying to numerically solve the region around a pulsar. Now since<br class="">

> > >> > pulsar is an inclined rotator with inclination angle between rotation<br class="">

> > >> axis<br class="">

> > >> > and dipole axis I would like to include in my yt script.<br class="">

> > >> ><br class="">

> > >> > My original code written in FORTRAN incorporated this inclination but<br class="">

> > >> how<br class="">

> > >> > would I incorporate it into my visualization using yt without changing<br class="">

> > >> my<br class="">

> > >> > data.<br class="">

> > >> ><br class="">

> > >> > Could you suggest ways for the same?<br class="">

> > >> ><br class="">

> > >> > The google drive link to my script (streamline.py) and streamline plot<br class="">

> > >> > (streamline_t000.png) is included<br class="">

> > >> ><br class="">

> > >> > <a href="https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc" rel="noreferrer" target="_blank" class="">https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc</a> <<a href="https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc" rel="noreferrer" target="_blank" class="">https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc</a>><br class="">

> > >> ><br class="">

> > >> > Thanks in advance<br class="">

> > >> ><br class="">

> > >> > On Tue, Mar 29, 2016 at 12:54 PM, <<br class="">

> > <a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>><br class="">

> > >> ><br class="">

> > >> > wrote:<br class="">

> > >> >><br class="">

> > >> >> Send yt-users mailing list submissions to<br class="">

> > >> >>         <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> >> To subscribe or unsubscribe via the World Wide Web, visit<br class="">

> > >> >><br class="">

> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >> or, via email, send a message with subject or body 'help' to<br class="">

> > >> >>         <a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-request@lists.spacepope.org" target="_blank" class="">yt-users-request@lists.spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> >> You can reach the person managing the list at<br class="">

> > >> >>         <a href="mailto:yt-users-owner@lists.spacepope.org" target="_blank" class="">yt-users-owner@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users-owner@lists.spacepope.org" target="_blank" class="">yt-users-owner@lists.spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> >> When replying, please edit your Subject line so it is more specific<br class="">

> > >> >> than "Re: Contents of yt-users digest..."<br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >> Today's Topics:<br class="">

> > >> >><br class="">

> > >> >>    1. Re: gadget onto unigrid (Carla Bernhardt)<br class="">

> > >> >>    2. Re: gadget onto unigrid (Matthew Turk)<br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > ----------------------------------------------------------------------<br class="">

> > >> >><br class="">

> > >> >> Message: 1<br class="">

> > >> >> Date: Tue, 29 Mar 2016 15:55:27 +0200<br class="">

> > >> >> From: Carla Bernhardt <<a href="mailto:carla.j.bernhardt@gmail.com" target="_blank" class="">carla.j.bernhardt@gmail.com</a> <mailto:<a href="mailto:carla.j.bernhardt@gmail.com" target="_blank" class="">carla.j.bernhardt@gmail.com</a>>><br class="">

> > >> >> To: Discussion of the yt analysis package<br class="">

> > >> >>         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> > >> >> Subject: Re: [yt-users] gadget onto unigrid<br class="">

> > >> >> Message-ID:<br class="">

> > >> >><br class="">

> > >> >> <CAFK0O=2vH24ViqeZ5QS3DY3uido0kEaF=<a href="mailto:UhyGS_beuiUMbw7Ag@mail.gmail.com" target="_blank" class="">UhyGS_beuiUMbw7Ag@mail.gmail.com</a> <mailto:<a href="mailto:UhyGS_beuiUMbw7Ag@mail.gmail.com" target="_blank" class="">UhyGS_beuiUMbw7Ag@mail.gmail.com</a>>><br class="">

> > >> >> Content-Type: text/plain; charset="utf-8"<br class="">

> > >> >><br class="">

> > >> >> Hi All,<br class="">

> > >> >><br class="">

> > >> >> A follow-up question: In using arbitrary_grid (but with enzo data),<br class="">

> > how<br class="">

> > >> >> does one then extract a field of an arbitrary_grid? I tried<br class="">

> > >> >> arbgrid["density"] as I have done with a smoothed_covering_grid<br class="">

> > object,<br class="">

> > >> >> but<br class="">

> > >> >> it does not work (here is the traceback <<br class="">

> > <a href="http://pastebin.com/afgcgpp0" rel="noreferrer" target="_blank" class="">http://pastebin.com/afgcgpp0</a> <<a href="http://pastebin.com/afgcgpp0" rel="noreferrer" target="_blank" class="">http://pastebin.com/afgcgpp0</a>>><br class="">

> > >> I<br class="">

> > >> >> got).<br class="">

> > >> >><br class="">

> > >> >> Thanks,<br class="">

> > >> >> Carla<br class="">

> > >> >><br class="">

> > >> >> 2016-02-23 17:21 GMT+01:00 Matthew Turk <<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a> <mailto:<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a>>>:<br class="">

> > >> >><br class="">

> > >> >> > Hi Desika,<br class="">

> > >> >> ><br class="">

> > >> >> > Yup, this can be done reasonably easily using either the<br class="">

> > >> >> > .arbitrary_grid object (which was designed for this) or the<br class="">

> > interface<br class="">

> > >> >> > to the arbitrary grid that's in the development version, which is<br class="">

> > >> >> > ds.r[ ... ] where the ... is some combination of bounds and steps.<br class="">

> > >> >> ><br class="">

> > >> >> ><br class="">

> > <a href="http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid</a> <<a href="http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid</a>><br class="">

> > >> >> ><br class="">

> > >> >> ><br class="">

> > >> >> ><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data</a> <<a href="http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data</a>><br class="">

> > >> >> ><br class="">

> > >> >> > On Tue, Feb 23, 2016 at 10:18 AM, Desika Narayanan<br class="">

> > >> >> > <<a href="mailto:desika.narayanan@gmail.com" target="_blank" class="">desika.narayanan@gmail.com</a> <mailto:<a href="mailto:desika.narayanan@gmail.com" target="_blank" class="">desika.narayanan@gmail.com</a>>> wrote:<br class="">

> > >> >> > > Hi All,<br class="">

> > >> >> > ><br class="">

> > >> >> > > Is it possible to deposit the particles from a gadget data set<br class="">

> > >> onto a<br class="">

> > >> >> > > uniform grid in yt?  Or, could it be possible to trick the octree<br class="">

> > >> >> > deposition<br class="">

> > >> >> > > into doing it by forcing no refinements, but some sort of native<br class="">

> > >> grid<br class="">

> > >> >> > > resolution?<br class="">

> > >> >> > ><br class="">

> > >> >> > > thanks,<br class="">

> > >> >> > > desika<br class="">

> > >> >> > ><br class="">

> > >> >> > ><br class="">

> > >> >> > > _______________________________________________<br class="">

> > >> >> > > yt-users mailing list<br class="">

> > >> >> > > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> > > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >> > ><br class="">

> > >> >> > _______________________________________________<br class="">

> > >> >> > yt-users mailing list<br class="">

> > >> >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >> ><br class="">

> > >> >> -------------- next part --------------<br class="">

> > >> >> An HTML attachment was scrubbed...<br class="">

> > >> >> URL:<br class="">

> > >> >> <<br class="">

> > >><br class="">

> > <a href="http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160329/e29a03a1/attachment.html" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160329/e29a03a1/attachment.html</a> <<a href="http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160329/e29a03a1/attachment.html" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20160329/e29a03a1/attachment.html</a>><br class="">

> > >> ><br class="">

> > >> >><br class="">

> > >> >> ------------------------------<br class="">

> > >> >><br class="">

> > >> >> Message: 2<br class="">

> > >> >> Date: Tue, 29 Mar 2016 08:57:08 -0500<br class="">

> > >> >> From: Matthew Turk <<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a> <mailto:<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a>>><br class="">

> > >> >> To: Discussion of the yt analysis package<br class="">

> > >> >>         <<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>>><br class="">

> > >> >> Subject: Re: [yt-users] gadget onto unigrid<br class="">

> > >> >> Message-ID:<br class="">

> > >> >><br class="">

> > >> >> <CALO3=5HR=zLHujWKgLpqwei_98vBOjpYvQ4m8nnUFR=<a href="mailto:P098utA@mail.gmail.com" target="_blank" class="">P098utA@mail.gmail.com</a> <mailto:<a href="mailto:P098utA@mail.gmail.com" target="_blank" class="">P098utA@mail.gmail.com</a>>><br class="">

> > >> >> Content-Type: text/plain; charset=UTF-8<br class="">

> > >> >><br class="">

> > >> >> Hi Carla,<br class="">

> > >> >><br class="">

> > >> >> This functionality was recently implemented and is in the development<br class="">

> > >> >> version, but not yet in the stable.  We're hoping for a release very<br class="">

> > >> >> shortly, but you can also try the dev version if you'd like!<br class="">

> > >> >><br class="">

> > >> >> -Matt<br class="">

> > >> >><br class="">

> > >> >> On Tue, Mar 29, 2016 at 8:55 AM, Carla Bernhardt<br class="">

> > >> >> <<a href="mailto:carla.j.bernhardt@gmail.com" target="_blank" class="">carla.j.bernhardt@gmail.com</a> <mailto:<a href="mailto:carla.j.bernhardt@gmail.com" target="_blank" class="">carla.j.bernhardt@gmail.com</a>>> wrote:<br class="">

> > >> >> > Hi All,<br class="">

> > >> >> ><br class="">

> > >> >> > A follow-up question: In using arbitrary_grid (but with enzo data),<br class="">

> > >> how<br class="">

> > >> >> > does<br class="">

> > >> >> > one then extract a field of an arbitrary_grid? I tried<br class="">

> > >> >> > arbgrid["density"] as<br class="">

> > >> >> > I have done with a smoothed_covering_grid object, but it does not<br class="">

> > >> work<br class="">

> > >> >> > (here<br class="">

> > >> >> > is the traceback I got).<br class="">

> > >> >> ><br class="">

> > >> >> > Thanks,<br class="">

> > >> >> > Carla<br class="">

> > >> >> ><br class="">

> > >> >> > 2016-02-23 17:21 GMT+01:00 Matthew Turk <<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a> <mailto:<a href="mailto:matthewturk@gmail.com" target="_blank" class="">matthewturk@gmail.com</a>>>:<br class="">

> > >> >> >><br class="">

> > >> >> >> Hi Desika,<br class="">

> > >> >> >><br class="">

> > >> >> >> Yup, this can be done reasonably easily using either the<br class="">

> > >> >> >> .arbitrary_grid object (which was designed for this) or the<br class="">

> > >> interface<br class="">

> > >> >> >> to the arbitrary grid that's in the development version, which is<br class="">

> > >> >> >> ds.r[ ... ] where the ... is some combination of bounds and steps.<br class="">

> > >> >> >><br class="">

> > >> >> >><br class="">

> > >> <a href="http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid</a> <<a href="http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#arbitrary-grid</a>><br class="">

> > >> >> >><br class="">

> > >> >> >><br class="">

> > >> >> >><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data</a> <<a href="http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data" rel="noreferrer" target="_blank" class="">http://yt-project.org/docs/dev/analyzing/objects.html#slicing-syntax-for-selecting-data</a>><br class="">

> > >> >> >><br class="">

> > >> >> >> On Tue, Feb 23, 2016 at 10:18 AM, Desika Narayanan<br class="">

> > >> >> >> <<a href="mailto:desika.narayanan@gmail.com" target="_blank" class="">desika.narayanan@gmail.com</a> <mailto:<a href="mailto:desika.narayanan@gmail.com" target="_blank" class="">desika.narayanan@gmail.com</a>>> wrote:<br class="">

> > >> >> >> > Hi All,<br class="">

> > >> >> >> ><br class="">

> > >> >> >> > Is it possible to deposit the particles from a gadget data set<br class="">

> > >> onto a<br class="">

> > >> >> >> > uniform grid in yt?  Or, could it be possible to trick the<br class="">

> > octree<br class="">

> > >> >> >> > deposition<br class="">

> > >> >> >> > into doing it by forcing no refinements, but some sort of native<br class="">

> > >> grid<br class="">

> > >> >> >> > resolution?<br class="">

> > >> >> >> ><br class="">

> > >> >> >> > thanks,<br class="">

> > >> >> >> > desika<br class="">

> > >> >> >> ><br class="">

> > >> >> >> ><br class="">

> > >> >> >> > _______________________________________________<br class="">

> > >> >> >> > yt-users mailing list<br class="">

> > >> >> >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >> >> ><br class="">

> > >> >> >> _______________________________________________<br class="">

> > >> >> >> yt-users mailing list<br class="">

> > >> >> >> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> >> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >> ><br class="">

> > >> >> ><br class="">

> > >> >> ><br class="">

> > >> >> > _______________________________________________<br class="">

> > >> >> > yt-users mailing list<br class="">

> > >> >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >> ><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >> ------------------------------<br class="">

> > >> >><br class="">

> > >> >> Subject: Digest Footer<br class="">

> > >> >><br class="">

> > >> >> _______________________________________________<br class="">

> > >> >> yt-users mailing list<br class="">

> > >> >> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >> ------------------------------<br class="">

> > >> >><br class="">

> > >> >> End of yt-users Digest, Vol 97, Issue 34<br class="">

> > >> >> ****************************************<br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> > --<br class="">

> > >> > SK2<br class="">

> > >> ><br class="">

> > >> > "Claiming that something can move faster than light is a good<br class="">

> > >> > conversation-stopper in physics. People edge away from you in cocktail<br class="">

> > >> > parties; friends never return phone calls. You just don?t mess with<br class="">

> > >> Albert<br class="">

> > >> > Einstein."<br class="">

> > >> ><br class="">

> > >> ><br class="">

> > >> > _______________________________________________<br class="">

> > >> > yt-users mailing list<br class="">

> > >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> ><br class="">

> > >><br class="">

> > >><br class="">

> > >> ------------------------------<br class="">

> > >><br class="">

> > >> Message: 4<br class="">

> > >> Date: Wed, 30 Mar 2016 18:01:04 -0400<br class="">

> > >> From: Jonah Miller <<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a> <mailto:<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a>>><br class="">

> > >> To: <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> Subject: Re: [yt-users] load spherical polar coordinate data with mesh<br class="">

> > >>         refinement in HDF5<br class="">

> > >> Message-ID: <<a href="mailto:56FC4CA0.4030403@gmail.com" target="_blank" class="">56FC4CA0.4030403@gmail.com</a> <mailto:<a href="mailto:56FC4CA0.4030403@gmail.com" target="_blank" class="">56FC4CA0.4030403@gmail.com</a>>><br class="">

> > >> Content-Type: text/plain; charset=windows-1252; format=flowed<br class="">

> > >><br class="">

> > >> Hi Yanfei,<br class="">

> > >><br class="">

> > >> To add to Matt's comment. Here is the documentation for using<br class="">

> > >> load_hexahedral_mesh.<br class="">

> > >><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/examining/loading_data.html#semi-structured-grid-data" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/loading_data.html#semi-structured-grid-data</a> <<a href="http://yt-project.org/doc/examining/loading_data.html#semi-structured-grid-data" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/loading_data.html#semi-structured-grid-data</a>><br class="">

> > >><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_hexahedral_mesh.html" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_hexahedral_mesh.html</a> <<a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_hexahedral_mesh.html" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_hexahedral_mesh.html</a>><br class="">

> > >><br class="">

> > >> Best,<br class="">

> > >> Jonah<br class="">

> > >><br class="">

> > >> On 16-03-30 05:15 PM, Matthew Turk wrote:<br class="">

> > >> > Hi Yanfei,<br class="">

> > >> ><br class="">

> > >> > This is possible -- but it will also slow some things down.  You can<br class="">

> > >> > use the load_hexahedral_mesh function, and there're examples of this.<br class="">

> > >> > This takes away some of the optimizations that regular grids can do,<br class="">

> > >> > but we're hoping to add them back in shortly.  Like the other<br class="">

> > >> > functions it too takes a geometry argument.<br class="">

> > >> ><br class="">

> > >> > -Matt<br class="">

> > >> ><br class="">

> > >> > On Wed, Mar 30, 2016 at 2:49 PM, Jiang, Yanfei<br class="">

> > >> > <<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a> <mailto:<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a>>> wrote:<br class="">

> > >> >> Hi Jonah,<br class="">

> > >> >><br class="">

> > >> >>     I am able to load the data to yt now using load_amr_grids(). I<br class="">

> > >> notice<br class="">

> > >> >> that it can also set geometry to spherical. This is great. But to<br class="">

> > make<br class="">

> > >> life<br class="">

> > >> >> more complicate. Is it possible to let yt know that the grid is<br class="">

> > >> logarithmic?<br class="">

> > >> >> Currently, load_amr_grids() just take left and right edges of each<br class="">

> > >> block. I<br class="">

> > >> >> guess yt assumes the grid is uniform between left and right edges. Is<br class="">

> > >> it<br class="">

> > >> >> possible to provide arrays of coordinate values for each cell in each<br class="">

> > >> block?<br class="">

> > >> >><br class="">

> > >> >> Thanks.<br class="">

> > >> >><br class="">

> > >> >> On Tue, Mar 29, 2016 at 6:58 PM, Jonah Miller<br class="">

> > >> >> <<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a> <mailto:<a href="mailto:jonah.maxwell.miller@gmail.com" target="_blank" class="">jonah.maxwell.miller@gmail.com</a>>> wrote:<br class="">

> > >> >>> Hi Yan-Feng,<br class="">

> > >> >>><br class="">

> > >> >>> I haven't tried it, but I think there is functionality for this. You<br class="">

> > >> can<br class="">

> > >> >>> use the load_amr_grids() function which can load amr data in<br class="">

> > >> Cartesian,<br class="">

> > >> >>> spherical, or polar coordinates. Here's the documentation:<br class="">

> > >> >>><br class="">

> > >> >>><br class="">

> > >> >>><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array</a> <<a href="http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/examining/generic_array_data.html#loading-numpy-array</a>><br class="">

> > >> >>><br class="">

> > >> >>><br class="">

> > >> >>><br class="">

> > >><br class="">

> > <a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids</a> <<a href="http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids" rel="noreferrer" target="_blank" class="">http://yt-project.org/doc/reference/api/generated/yt.frontends.stream.data_structures.load_amr_grids.html#yt.frontends.stream.data_structures.load_amr_grids</a>><br class="">

> > >> >>><br class="">

> > >> >>> Best,<br class="">

> > >> >>> Jonah<br class="">

> > >> >>><br class="">

> > >> >>> On Tue, Mar 29, 2016, 6:35 PM Jiang, Yanfei <<br class="">

> > >> <a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a> <mailto:<a href="mailto:yanfei.jiang@cfa.harvard.edu" target="_blank" class="">yanfei.jiang@cfa.harvard.edu</a>>><br class="">

> > >> >>> wrote:<br class="">

> > >> >>>> Hi,<br class="">

> > >> >>>>           I have some data from a new version of Athena<br class="">

> > simulations.<br class="">

> > >> It is<br class="">

> > >> >>>> in spherical polar coordinate with mesh refinement written in HDF5.<br class="">

> > >> The data<br class="">

> > >> >>>> structure is similar to flash data but not the same. Does anyone<br class="">

> > have<br class="">

> > >> >>>> suggestions to load such data to yt directly?<br class="">

> > >> >>>><br class="">

> > >> >>>> Thank you.<br class="">

> > >> >>>> --<br class="">

> > >> >>>> Yan-Fei Jiang<br class="">

> > >> >>>><br class="">

> > >> >>>> Einstein Fellow<br class="">

> > >> >>>> Harvard-Smithsonian Center for Astrophysics<br class="">

> > >> >>>> 60 Garden Street, Cambridge MA USA 02138<br class="">

> > >> >>>> _______________________________________________<br class="">

> > >> >>>> yt-users mailing list<br class="">

> > >> >>>> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >>>> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >>><br class="">

> > >> >>> _______________________________________________<br class="">

> > >> >>> yt-users mailing list<br class="">

> > >> >>> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >>> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >>><br class="">

> > >> >><br class="">

> > >> >><br class="">

> > >> >> --<br class="">

> > >> >> Yan-Fei Jiang<br class="">

> > >> >><br class="">

> > >> >> Einstein Fellow<br class="">

> > >> >> Harvard-Smithsonian Center for Astrophysics<br class="">

> > >> >> 60 Garden Street, Cambridge MA USA 02138<br class="">

> > >> >><br class="">

> > >> >> _______________________________________________<br class="">

> > >> >> yt-users mailing list<br class="">

> > >> >> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> >> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >> >><br class="">

> > >> > _______________________________________________<br class="">

> > >> > yt-users mailing list<br class="">

> > >> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >><br class="">

> > >><br class="">

> > >><br class="">

> > >> ------------------------------<br class="">

> > >><br class="">

> > >> Subject: Digest Footer<br class="">

> > >><br class="">

> > >> _______________________________________________<br class="">

> > >> yt-users mailing list<br class="">

> > >> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > >> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > >><br class="">

> > >><br class="">

> > >> ------------------------------<br class="">

> > >><br class="">

> > >> End of yt-users Digest, Vol 97, Issue 37<br class="">

> > >> ****************************************<br class="">

> > >><br class="">

> > ><br class="">

> > ><br class="">

> > ><br class="">

> > > --<br class="">

> > > *SK2*<br class="">

> > ><br class="">

> > > *"**Claiming that something can move faster than light is a good<br class="">

> > > conversation-stopper in physics. People edge away from you in cocktail<br class="">

> > > parties; friends never return phone calls. You just don?t mess with<br class="">

> > Albert<br class="">

> > > Einstein.**"*<br class="">

> > ><br class="">

> > ><br class="">

> > > _______________________________________________<br class="">

> > > yt-users mailing list<br class="">

> > > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

> > > <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a> <<a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" rel="noreferrer" target="_blank" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a>><br class="">

> > ><br class="">

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> ><br class="">

> > ------------------------------<br class="">

> ><br class="">

> > Subject: Digest Footer<br class="">

> ><br class="">

> > _______________________________________________<br class="">

> > yt-users mailing list<br class="">

> > <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

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> ><br class="">

> ><br class="">

> > ------------------------------<br class="">

> ><br class="">

> > End of yt-users Digest, Vol 97, Issue 39<br class="">

> > ****************************************<br class="">

> ><br class="">

><br class="">

><br class="">

><br class="">

> --<br class="">

> *SK2*<br class="">

><br class="">

> *"**Claiming that something can move faster than light is a good<br class="">

> conversation-stopper in physics. People edge away from you in cocktail<br class="">

> parties; friends never return phone calls. You just don?t mess with Albert<br class="">

> Einstein.**"*<br class="">

> -------------- next part --------------<br class="">

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><br class="">

> ------------------------------<br class="">

><br class="">

> Subject: Digest Footer<br class="">

><br class="">

> _______________________________________________<br class="">

> yt-users mailing list<br class="">

> <a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a> <mailto:<a href="mailto:yt-users@lists.spacepope.org" target="_blank" class="">yt-users@lists.spacepope.org</a>><br class="">

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><br class="">

><br class="">

> ------------------------------<br class="">

><br class="">

> End of yt-users Digest, Vol 97, Issue 41<br class="">

> ****************************************<br class="">

><br class="">

><br class="">

><br class="">

> --<br class="">

> SK2<br class="">

><br class="">

> "Claiming that something can move faster than light is a good conversation-stopper in physics. People edge away from you in cocktail parties; friends never return phone calls. You just don?t mess with Albert Einstein."<br class="">

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</blockquote></div><br class=""><br clear="all" class=""><br class="">-- <br class=""></div></div><div class=""><span style="border-collapse:collapse" class=""><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse" class=""><b class=""><i class="">SK<sup class="">2</sup></i></b></span></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse" class=""><b class=""><i class=""><sup class=""><br class=""></sup></i></b></span></div><div class=""><span style="color:rgb(80,0,80);font-family:arial,sans-serif;border-collapse:collapse" class=""><b class=""><sup class="">"</sup></b></span><font face="arial, sans-serif" color="#500050" class=""><b class="">Claiming that something can move faster than light is a good conversation-stopper in physics. People edge away from you in cocktail parties; friends never return phone calls. You just don’t mess with Albert Einstein.</b></font><b style="color:rgb(80,0,80);font-family:arial,sans-serif" class=""><sup class="">"</sup></b></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><br class=""></div></span></div>

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</blockquote></div><br class=""><br clear="all" class=""><br class="">-- <br class=""><div class=""><span style="border-collapse:collapse" class=""><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse" class=""><b class=""><i class="">SK<sup class="">2</sup></i></b></span></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse" class=""><b class=""><i class=""><sup class=""><br class=""></sup></i></b></span></div><div class=""><span style="color:rgb(80,0,80);font-family:arial,sans-serif;border-collapse:collapse" class=""><b class=""><sup class="">"</sup></b></span><font face="arial, sans-serif" color="#500050" class=""><b class="">Claiming that something can move faster than light is a good conversation-stopper in physics. People edge away from you in cocktail parties; friends never return phone calls. You just don’t mess with Albert Einstein.</b></font><b style="color:rgb(80,0,80);font-family:arial,sans-serif" class=""><sup class="">"</sup></b></div><div style="color:rgb(80,0,80);font-family:arial,sans-serif;font-size:13px" class=""><br class=""></div></span></div>

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