Mailman 3 April 2014 - yt-users

Making volume rendering interactive
by Irwin Zaid 22 Apr '14

22 Apr '14

Hi everyone, I'm a new user to yt (which looks amazing, by the way), and have a question about volume rendering... What I'd like to do is have interactive volume rendering, like what is in VTK. In VTK, you can use the mouse to pan, zoom, and dolly. From what I can see, this isn't directly possible with yt currently. Is that correct? Assuming that is correct, I'd be happy to write my own interactive navigator using matplotlib. However, I'd need to be able to map a (i, j) pixel from the 2D image output from camera.snapshot to an (x, y, z) position in the volume. Is there a way to do this without too much effort? I see there is a method called 'project_to_plane' in camera, which seems like it might do the inverse of that... Relatedly, I was told on IRC that there is a new camera interface in the works (http://ytep.readthedocs.org/en/latest/YTEPs/YTEP-0010.html). Is there a branch for this somewhere? Does it need contributors? It is going to be interactive in the above sense? Thanks for your help! Irwin

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Reverse yt back to v2.5
by Yong Zheng 22 Apr '14

22 Apr '14

Hi everyone, I recently updated the yt, then realized there is a license issue with HEALPix in the new version... Is there a way that I can reverse back to my previous version (yt2.5)? Thanks! Yong

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Notebook server question
by Andrew Myers 19 Apr '14

19 Apr '14

Hello yt users, I have a (perhaps naive) ssh question related to the yt notebook. I would like to run a yt notebook server on machine A. However, machine A cannot be directly accessed via ssh from the wider internet. Instead, I must first ssh into machine B, and then ssh from B to A. Machine B cannot run the notebook server itself. Does anyone know how I can configure things - perhaps by using a more complicated ssh tunnel command - so I that access a notebook server running on machine A through machine B? Thanks, Andrew

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Plotting .vtk for PLUTO
by Varadarajan Parthasarathy 17 Apr '14

17 Apr '14

Is it possible to load and plot data from vtk files in PLUTO. I would like to know about streamlines in plotting with yt. V .

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vtk for PLUTO
by Varadarajan Parthasarathy 17 Apr '14

17 Apr '14

I tried loading the data and got this : >>> from yt.mods import * >>> from yt.visualization.api import Streamlines >>> pf = load('bfield.0003.vtk') yt : [ERROR ] 2014-04-17 23:39:04,278 Multiple output type candidates for bfield.0003.vtk: yt : [ERROR ] 2014-04-17 23:39:04,278 Possible: AthenaStaticOutput yt : [ERROR ] 2014-04-17 23:39:04,279 Possible: PlutoStaticOutput Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/usr/local/lib/python2.7/dist-packages/yt/convenience.py", line 94, in load raise YTOutputNotIdentified(args, kwargs) yt.utilities.exceptions.YTOutputNotIdentified: Supplied ('bfield.0003.vtk',) {}, but could not load! The grid is static and not AMR (Chombo refinement was not used). Is it not possible to plot data from static output ? V .

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Cannot import name pixelize_aitoff
by B.W. Keller 16 Apr '14

16 Apr '14

Hello all, Using the current head of the yt-3.0 branch, I cannot succesfully run "from yt.mods import *", as I get the following error: ImportError Traceback (most recent call last) <ipython-input-1-e42b74c4be27> in <module>() ----> 1 from yt.imods import * /home/kellerbw/yt/yt/__init__.pyc in <module>() 114 derived_field 115 --> 116 from yt.data_objects.api import \ 117 BinnedProfile1D, BinnedProfile2D, BinnedProfile3D, \ 118 DatasetSeries, \ /home/kellerbw/yt/yt/data_objects/api.py in <module>() 20 OctreeSubset 21 ---> 22 from static_output import \ 23 Dataset 24 /home/kellerbw/yt/yt/data_objects/static_output.py in <module>() 51 from yt.geometry.cylindrical_coordinates import \ 52 CylindricalCoordinateHandler ---> 53 from yt.geometry.spherical_coordinates import \ 54 SphericalCoordinateHandler 55 from yt.geometry.geographic_coordinates import \ /home/kellerbw/yt/yt/geometry/spherical_coordinates.py in <module>() 21 _get_coord_fields 22 import yt.visualization._MPL as _MPL ---> 23 from yt.utilities.lib.misc_utilities import \ 24 pixelize_cylinder, pixelize_aitoff 25 ImportError: cannot import name pixelize_aitoff Any ideas? Ben

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draw_domain failure
by Chang-Goo Kim 16 Apr '14

16 Apr '14

HI all, I'm a new yt-user, who are trying to produce nice volume rendering images with yt. While I was playing with volume rendering examples, I got an error message for draw_domain function. http://paste.yt-project.org/show/sbQxZHfKi5Wto03SlKI2/ I talked with Matt, and he tried to solve it. Now it doesn't return error message, but I still cannot draw wireframes for domain. Here's my code. http://paste.yt-project.org/show/4506/ Thanks a lot! Chang-Goo

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change size of phase plot
by Stephanie Tonnesen 15 Apr '14

15 Apr '14

Hi all, I am trying to make my phase plots smaller so they can fit more nicely into a paper. Alternatively, I would be fine with upping the font size so when I shrink them you can read the axes. I found advise on how to do this for slices, but not for phase_objects. pc = PlotCollection(pf) tracerp25 = alld.cut_region(["grid['specific_scalar[0]'] > 0.5", "grid['z'] < 0.192","grid['z'] > -0.192","grid['cyl_RCode'] < 1.2"]) pc.add_phase_object(tracerp25,["Density","z-velocity","CellMassSolar"],weight=None,x_bins=50,y_bins=50,y_bounds = [-4e7,8e7],x_bounds=[5e-28,5e-23],x_log=True,y_log=False) Any help is much appreciated! Thanks, Stephanie

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Ramses without hydro
by Marcelo Vargas dos Santos 15 Apr '14

15 Apr '14

I'm trying to use HaloFinders on a ramses simulation without hydro. but it's not working. Tha error message is: No such file or directory: '/home/marcelo/Simulations/NBody/Ramses/branches/ramses_omp/run1/output_00001/hydro_00001.out00001' someone know how to fix it? Best. -- Marcelo Vargas dos Santos Professor e Doutorando Sala A 318-05 Tel.: (21) 2562-7276 E-mails: vargas(a)if.ufrj.br, marcelovsrj(a)gmail.com Departamento de Física Teórica - Instituto de Física Universidade Federal do Rio de Janeiro

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Hub and AWS downtime
by Matthew Turk 11 Apr '14

11 Apr '14

Hi all, The yt data hub and affiliated services are going to go down for a little while; I hope this will be less than a few days, but we need to migrate off of the AWS services over to Rackspace. This will include storage of answer testing (both yt and Enzo) as well as the hub. I am leaving the blog up for the time being, but it will need to migrate as well eventually. Again, I am aiming to have a short downtime... but it might be up to a week. -Matt

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