yt-users February 2013

yt-users@python.org

26 participants
23 discussions

Stars on volume rendering
by Elizabeth Harper-Clark 11 Dec '21

11 Dec '21

Hi all, Thanks for all your help over the last couple of days. One more question: - Can I plot particles on a volume rendered image? I have stars and I want to show where they are! Thanks, Libby -- Elizabeth Harper-Clark MA MSci PhD Candidate, Canadian Institute for Theoretical Astrophysics, UofT Sciences and Engineering Coordinator, Teaching Assistants' Training Program, UofT www.astro.utoronto.ca/~h-clark <http://www.astro.utoronto.ca/%7Eh-clark> h-clark(a)cita.utoronto.ca Astronomy office phone: +1-416-978-5759

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Variance in phase/profiles
by david collins 11 Apr '20

11 Apr '20

Hi, Everybody! Does anyone out there have a technique for getting the variance out of a profile object? A profile object is good at getting <X> vs. B, I'd then like to get < (X - <X>)^2 > vs B. Matt and I had spittballed the possibility some time ago, but I was wondering if anyone out there had successfully done it. Thanks, d. -- Sent from my computer.

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yt volume render/AMRKDtree help
by Renyue Cen 25 Aug '13

25 Aug '13

Hi, I did some simple volume rendering with the following script: volume2 = AMRKDTree(pf, fields=["Dark_Matter_Density"], no_ghost=False, tree_type="domain", le=c-0.5*WW, re=c+0.5*WW) cam = pf.h.camera(c, L, W, N, tf, volume=volume2, no_ghost=False, north_vector=L, steady_north=True) cam.snapshot(fn="%s_iso-DMdensity-%3.3d.png" % (filenameTHIS, j)) I got rather strange results in that the pictures look symmetric, which I am pretty sure can not be true. I attach the obtained plot. Note that I am using KD tree and using 32 cores. Your help at your earliest convenience is appreciated. Best, Renyue

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Test for field
by Elizabeth Tasker 01 Mar '13

01 Mar '13

Hi, I want to test if a data set at particles. I thought: pf.has_key("particle_type") would work, but oddly it doesn't since: In [17]: pf.has_key("particle_type") Out[17]: False yet: In [4]: dd = pf.h.all_data() In [5]: dd["particle_type"] yt : [INFO ] 2013-02-23 17:00:43,826 Getting particle_type using ParticleIO Out[5]: array([11, 11, 11, ..., 11, 11, 11]) Shouldn't pf.has_key("particle_type") be true in this case? Elizabeth

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yt installation - forthon
by Mike Butler 28 Feb '13

28 Feb '13

Hello, I'm trying to install the latest dev branch of yt on my Ubuntu 11.10 laptop using the install script (with all default values) and run into trouble once it gets to the installation of yt. Here is the tail of the install log: /bin/sh: svnversion: not found PNG_LOCATION: png.cfg: /home/mike/Downloads/yt-x86_64/include, /home/mike/Downloads/yt-x86_64/lib FTYPE_LOCATION: freetype found in: /usr/include, /usr/lib HDF5_LOCATION: HDF5_DIR: /home/mike/Downloads/yt-x86_64/include, /home/mike/Downloads/yt-x86_64/lib running develop running build_scripts running egg_info running build_src running build_forthon error: No such file or directory I've double checked all the dependencies and they are all installed and up to date. The stable version installs fine, if that matters. If you need my full install log, let me know. Thanks, Mike

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athena region problem
by nick moeckel 27 Feb '13

27 Feb '13

Hi there, I'm dealing with some athena data right now, and running into some issues with defining regions. an example, with domain_left_edge = [0, 0, 0], and right_edge = [1, 1, 1] In [18]: center=[0.5,0.5,0.5] In [19]: lc = [0,0,0.4] In [20]: rc=[1.0,1.0,0.6] In [21]: region = pf.h.region(center, lc, rc) In [22]: region.volume() Out[22]: -inf I'm able to get at region.quantities, but trying to make a projection plot fails. Interestingly, or maybe not, if I try to do something similar with data that has its domain centered on the origin, the volume is finite and everything I've tried with plotting works fine. I guess athena support is still a bit preliminary, but I thought I'd throw this out there. best, Nick

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Porting .ply files to Blender with colors?
by Jill P. Naiman 25 Feb '13

25 Feb '13

Hi Matt, I've tried a few different things with PLY files and no luck. Actually, I'm not 100% sure if Blender really likes PLY files anyway - you can't even export color easily in PLY format in Blender. So, I've given up on PLY and have hacked together a bit of a messy OBJ exporter: http://paste.yt-project.org/show/3205/ I'm probably doing the colors wrong, since there's likely a nicer way to get actual "face" values then just taking the value at 1/3 of the vertex values, but it worked, so I didn't mess with it too much. A few other things: (1) in theory, this can set transparencies, but I haven't got that working as of yet, (2) the default specular (ambient?) color settings make for a bit of a washed-out view in sketchfab: http://skfb.ly/54jged0b, (3) the .mtl file is a bit too long since I'm essentially setting each face as a different material, when one would just like to use 1 material per color and set all the faces with that color on a specific surface plot to that material, but I haven't got that bit working well either. Thanks for the info, and please let me know if any of that doesn't make sense. -Jill

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Error on installation of yt on system python
by trobolo dinni 25 Feb '13

25 Feb '13

Dear yt users, I usually install yt on system python, following the procedure suggested me in this mailing list some months ago. In general everything goes fine with the installation and I can normally use yt. Now I installed Ubuntu from scratch in my computer (where previously yt was installed and running!) and the installation seems to fine, but when I insert the command "from yt.mods import * ", I get the following error: *--------------------------------------------------------------------------- * *ImportError Traceback (most recent call last) * * * */usr/local/lib/python2.7/dist-packages/yt/<ipython console> in <module>()* * * */usr/local/lib/python2.7/dist-packages/yt/yt/mods.py in <module>()* * 56 np.seterr(all = 'ignore')* * 57 * *---> 58 from yt.data_objects.api import \* * 59 BinnedProfile1D, BinnedProfile2D, BinnedProfile3D, \* * 60 data_object_registry, \* * * */usr/local/lib/python2.7/dist-packages/yt/yt/data_objects/api.py in <module>()* * 29 """* * 30 * *---> 31 from grid_patch import \* * 32 AMRGridPatch* * 33 * * * */usr/local/lib/python2.7/dist-packages/yt/yt/data_objects/grid_patch.py in <module>()* * 33 from yt.utilities.definitions import x_dict, y_dict* * 34 * *---> 35 from yt.data_objects.data_containers import YTFieldData* * 36 from yt.utilities.definitions import x_dict, y_dict* * 37 from .field_info_container import \* * * */usr/local/lib/python2.7/dist-packages/yt/yt/data_objects/data_containers.py in <module>()* * 41 from yt.config import ytcfg* * 42 * *---> 43 from yt.data_objects.derived_quantities import GridChildMaskWrapper * * 44 from yt.data_objects.particle_io import particle_handler_registry* * 45 from yt.utilities.lib import find_grids_in_inclined_box, \* * * */usr/local/lib/python2.7/dist-packages/yt/yt/data_objects/derived_quantities.py in <module>()* * 33 from yt.data_objects.field_info_container import \* * 34 FieldDetector* *---> 35 from yt.utilities.data_point_utilities import FindBindingEnergy* * 36 from yt.utilities.parallel_tools.parallel_analysis_interface import \* * 37 ParallelAnalysisInterface* * * *ImportError: No module named data_point_utilities* * * I would like to ask if someone has an idea of how can I solve this problem. Thanks, Roberto

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Porting .ply files to Blender with colors?
by Jill P. Naiman 23 Feb '13

23 Feb '13

Hi All, I was curious if anyone has had any luck porting .ply files generated with yt into Blender with colors? It seems to port in the surfaces just fine, but they are a uniform color. From what I can gather, Blender imports .ply files with face color instead of vertex so I tried the surf.export_ply routine with "face" instead of "vertex" for sample_type, but no luck ("vertex" doesn't work either). Let me know if I can provide any more useful info. Thanks for any help, -J

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NameError: name 'SlicePlot' is not defined
by Reju Sam John 22 Feb '13

22 Feb '13

Hello all, I the following code from yt.mods import * pf = load("RD0015/RedshiftOutput0015") p= SlicePlot(pf,2,'Density','c',(20,'kpc')) p.save('sliceplot') it is showing an error *Traceback (most recent call last): File "sliceplot_Density.py", line 3, in <module> p = SlicePlot(pf,2,'Density','c',(20,'kpc')) NameError: name 'SlicePlot' is not defined* what is the reason? is there files we have to import. -- Reju Sam John

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yt-users February 2013