Re: [yt-users] Camera/Off axis Options

Hi Sushil, Thanks for reporting this! I’ve filed an issue here: https://bitbucket.org/yt_analysis/yt/issues/1213/annotate_magnetic_field-fai... https://bitbucket.org/yt_analysis/yt/issues/1213/annotate_magnetic_field-fai... In the meanwhile, you could temporarily circumvent this problem by loading your dataset as velocity field and use “annotate_velocity”... Best wishes, -- Suoqing JI Ph.D Candidate Department of Physics University of California, Santa Barbara http://web.physics.ucsb.edu/~suoqing

On Apr 26, 2016, at 6:31 AM, Sushilkumar wrote:

Dear Suoqing Ji:

I was able to implement the off axis in my script (drive link below, file is yt_magnetic_fields.py). But there seems to be a problem. For any off axis value like (1,1,0) I get an error which is given below.

I am trying to get a z-x plane and view it at an angle of 15,45,60 degrees respectively. It works for along the axis normal vector like (1,0,0) and so on but for off axis value it gives me the error.

Could you let me know if there is any error in the script or ways to overcome it?

Thanks in advance

https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc

Error:

Traceback (most recent call last): File "yt_magnetic_fields.py", line 39, in <module> slc.save() File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_container.py", line 77, in newfunc args[0]._setup_plots() File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_window.py", line 980, in _setup_plots self.run_callbacks() File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_window.py", line 1033, in run_callbacks sys.exc_info()[2]) File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_window.py", line 1029, in run_callbacks callback(cbw) File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_modifications.py", line 316, in __call__ return qcb(plot) File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/visualization/plot_modifications.py", line 837, in __call__ plot.data[self.field_x], File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/data_objects/data_containers.py", line 246, in __getitem__ f = self._determine_fields([key])[0] File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/data_objects/data_containers.py", line 518, in _determine_fields finfo = self.ds._get_field_info("unknown", fname) File "/state/partition1/anaconda/lib/python2.7/site-packages/yt/data_objects/static_output.py", line 543, in _get_field_info raise YTFieldNotFound((ftype, fname), self) yt.utilities.exceptions.YTPlotCallbackError: annotate_magnetic_field callback failed with the following error: Could not find field '('all', 'cutting_plane_bx')' in UniformGridData

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1. Re: Camera Options (Suoqing Ji)

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Message: 1 Date: Thu, 21 Apr 2016 13:45:53 -0700 From: Suoqing Ji mailto:suoqing@physics.ucsb.edu> To: Discussion of the yt analysis package mailto:yt-users@lists.spacepope.org> Subject: Re: [yt-users] Camera Options Message-ID: mailto:AAE382DD-ADD2-4D85-BB1E-150B49CFBA40@physics.ucsb.edu> Content-Type: text/plain; charset="utf-8"

Hi Sushi,

What you need to do this to make use of off-axis slice plot instead of camera; for example, in your code:

L = [1, 0, 0] # View along x axis north_vector = [0, 0, 1] slc = yt.SlicePlot(pf, L, ?magnetic_field_x", width=(100,'km?), north_vector=north_vector) slc.annotate_magnetic_field(factor=40, normalize=True)

which gives you the view along x axis. And if you want to rotate the viewing angle by, say 45 degree, you could change the normal vector L to be L = [1, 1, 0], and redo the plotting.

Also, when you load the data, you probably need to change the name ?field_x? to be ?magnetic_field_x? and so on, so the annotate_magnetic_field function will recognize these names.

Best wishes, -- Suoqing JI Ph.D Candidate Department of Physics University of California, Santa Barbara http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing

...

On Apr 21, 2016, at 1:28 PM, Sushilkumar mailto:sushil.sush19us@gmail.com> wrote:

Dear Suoqing Ji:

The fields Bx,By and Bz are already calculated taking into account the rotation. So I am not sure if I need to calculate it again.

What I would like is only change the camera view to a desired angle after I do a slice plot and that is where I am having trouble with?

Thanks in advance.

On Thu, Apr 21, 2016 at 3:20 PM, mailto:yt-users-request@lists.spacepope.org mailto:yt-users-request@lists.spacepope.org>> wrote: Send yt-users mailing list submissions to yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org>

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1. Re: Camera Options (Suoqing Ji)

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Message: 1 Date: Thu, 21 Apr 2016 13:20:32 -0700 From: Suoqing Ji mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu>> To: Discussion of the yt analysis package mailto:yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org>> Subject: Re: [yt-users] Camera Options Message-ID: mailto:FB001F5B-2521-4705-8D31-3166451BCA58@physics.ucsb.edu mailto:FB001F5B-2521-4705-8D31-3166451BCA58@physics.ucsb.edu>> Content-Type: text/plain; charset="utf-8"

I see ? that?s a smart way of doing this!

Best wishes, Suoqing

...

On Apr 21, 2016, at 12:44 PM, Nathan Goldbaum mailto:nathan12343@gmail.com mailto:nathan12343@gmail.com>> wrote:

On Thu, Apr 21, 2016 at 2:41 PM, Suoqing Ji mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu> mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu>>> wrote: Hi Nathan,

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:

File "off_axis.py", line 49, in <module> slc.save(pf.basename) File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_container.py", line 76, in newfunc args[0].run_callbacks() File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_window.py", line 1029, in run_callbacks sys.exc_info()[2]) File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_window.py", line 1025, in run_callbacks callback(cbw) File "/usr/local/yt3/yt-x86_64/src/yt-hg/yt/visualization/plot_modifications.py", line 352, in __call__ (xi, yi) = (ds.coordinates.x_axis[ax], yt.utilities.exceptions.YTPlotCallbackError: annotate_quiver callback failed with the following error: 4

Right, I bet it will work if you do `annotate_velocity()` though.

You should take a look at the definition of the VelocityCallback to see how it handles off-axis slices.

Best wishes, -- Suoqing JI Ph.D Candidate Department of Physics University of California, Santa Barbara http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing> <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing>>

...

On Apr 21, 2016, at 12:35 PM, Nathan Goldbaum mailto:nathan12343@gmail.com mailto:nathan12343@gmail.com> mailto:nathan12343@gmail.com mailto:nathan12343@gmail.com>>> wrote:

On Thu, Apr 21, 2016 at 2:30 PM, Suoqing Ji mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu> mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu>>> wrote: Hi Sushi,

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: http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices> <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices>>

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:

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.

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: http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre... http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre... <http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre... http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre...> <http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre... http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre... <http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre... http://yt-project.org/docs/dev/cookbook/complex_plots.html?highlight=fixedre...>>), then you get a 2D array for each field;

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;

3. Use quiver function in matplotlib and plot the B field vectors after rotation, see: http://matplotlib.org/examples/pylab_examples/quiver_demo.html http://matplotlib.org/examples/pylab_examples/quiver_demo.html <http://matplotlib.org/examples/pylab_examples/quiver_demo.html http://matplotlib.org/examples/pylab_examples/quiver_demo.html> <http://matplotlib.org/examples/pylab_examples/quiver_demo.html http://matplotlib.org/examples/pylab_examples/quiver_demo.html <http://matplotlib.org/examples/pylab_examples/quiver_demo.html http://matplotlib.org/examples/pylab_examples/quiver_demo.html>>

Hope this helps! Perhaps there?s an easier way that I do not know...

Best wishes, -- Suoqing JI Ph.D Candidate Department of Physics University of California, Santa Barbara http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing> <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing>>

...

On Apr 21, 2016, at 10:31 AM, Sushilkumar mailto:sushil.sush19us@gmail.com mailto:sushil.sush19us@gmail.com> mailto:sushil.sush19us@gmail.com mailto:sushil.sush19us@gmail.com>>> wrote:

Dear yt:

I am having trouble with the camera option on yt.

The google drive link is https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc <https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc> <https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc <https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc https://drive.google.com/open?id=0B4g8shg4DL7oak5PLWVVdG5UMHc>>

I want to change the view of the camera at an angle after the Slice (x-z plane) and Quiver option.

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.

I am using these links for my reference

http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render...> <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render...>> http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering <http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering> <http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering <http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering http://yt-project.org/doc/visualizing/volume_rendering.html#volume-rendering>>

Thanks in advance

On Fri, Apr 15, 2016 at 4:49 PM, Sushilkumar mailto:sushil.sush19us@gmail.com mailto:sushil.sush19us@gmail.com> mailto:sushil.sush19us@gmail.com mailto:sushil.sush19us@gmail.com>>> wrote: Dear Suoqing JI:

Thank you

On Fri, Apr 15, 2016 at 12:59 PM, mailto:yt-users-request@lists.spacepope.org mailto:yt-users-request@lists.spacepope.org> mailto:yt-users-request@lists.spacepope.org mailto:yt-users-request@lists.spacepope.org>>> wrote: Send yt-users mailing list submissions to yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org> mailto:yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org>>

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Today's Topics:

1. Re: Camera Options (Suoqing Ji)

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Message: 1 Date: Fri, 15 Apr 2016 10:59:22 -0700 From: Suoqing Ji mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu> mailto:suoqing@physics.ucsb.edu mailto:suoqing@physics.ucsb.edu>>> To: Discussion of the yt analysis package mailto:yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org> mailto:yt-users@lists.spacepope.org mailto:yt-users@lists.spacepope.org>>> Subject: Re: [yt-users] Camera Options Message-ID: mailto:B885F215-5F0A-49D5-9712-2D8FCEAA1366@physics.ucsb.edu mailto:B885F215-5F0A-49D5-9712-2D8FCEAA1366@physics.ucsb.edu> mailto:B885F215-5F0A-49D5-9712-2D8FCEAA1366@physics.ucsb.edu mailto:B885F215-5F0A-49D5-9712-2D8FCEAA1366@physics.ucsb.edu>>> Content-Type: text/plain; charset="utf-8"

Hi Sushi,

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

http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices> <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices>> <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices> <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices <http://yt-project.org/doc/visualizing/plots.html#off-axis-slices http://yt-project.org/doc/visualizing/plots.html#off-axis-slices>>> http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots> <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots>> <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots> <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots <http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots http://yt-project.org/doc/visualizing/plots.html#off-axis-projection-plots>>>

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:

http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render...> <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render...>> <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render...> <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... <http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render... http://yt-project.org/doc/cookbook/complex_plots.html#moving-a-volume-render...>>>

Best wishes, -- Suoqing JI Ph.D Candidate Department of Physics University of California, Santa Barbara http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing> <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing <http://web.physics.ucsb.edu/~suoqing http://web.physics.ucsb.edu/~suoqing>>

...

On Apr 15, 2016, at 8:38 AM, Sushilkumar mailto:sushil.sush19us@gmail.com mailto:sushil.sush19us@gmail.com> mailto:sushil.sush19us@gmail.com mailto:sushil.sush19us@gmail.com>>> wrote:

Dear yt:

I would like to change/customize/rotate my camera angle for my slice plots without rotating the axis.

What options do I have using yt if I want to move my camera angle by say 45 degrees?

Can I use the following link or can you suggest me something else http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html> <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html>> <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html> <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html <http://yt-project.org/doc/visualizing/volume_rendering.html http://yt-project.org/doc/visualizing/volume_rendering.html>>>

Thanks in advance