yt-users July 2014

yt-users@python.org

33 participants
42 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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Flux Across Surfaces
by Melinda Soares-Furtado 01 Aug '14

01 Aug '14

I have used yt to determine the flux calculation for a region surrounding a single star with a given mass loss rate. This region is right outside the stellar radius (see attached). Comparing the flux calculation to the known mass loss rate, I see that not all of the mass is accounted for and, what's more, improved refinement of the simulation enhances this percentage, however it is still below 70%. I need to calculate the flux for a region surrounding a large group of stars, so simply increasing the refinement is really not an option. Any suggestions as to how I can use yt for my flux diagnostics in a manner that is more accurate? Best, Melinda

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Unstructured grid yt support‏‏ -question
by Ariadna Murguia 31 Jul '14

31 Jul '14

Hi! I wrote a while back asking to visualize a dataset in an unstructured grid with AMR and a vtk output file. I was given a script that could do simple visualizations: http://paste.yt-project.org/show/4879/ . I tried altering it in order to visualize my data but (line 39), the number of elements in my vals array is odd, making the reshape become an error. Is there a way around it? Thank you very much Ariadna Murguia Berthier

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Polar Coordinates Help
by Owen McCrossan 30 Jul '14

30 Jul '14

Hello, So I have flash code which generates data into polar coordinates and I need to graph this data in polar coordinates with yt as well, but yt is converting into cartesian coordinates. How can I fix this?

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unitless values in 3.0
by Desika Narayanan 29 Jul '14

29 Jul '14

Hi All, Is there a way to drop the units for a value in yt 3.0? For example, in astropy, you can get the raw value of x (without units) by accessing x.value. Thanks, desika

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yt surface triangles in mayavi?
by Michael Zingale 29 Jul '14

29 Jul '14

Has anyone tried taking the triangles output from yt's surface function and plot them using Mayavi mlab? The 3d support in matplotlib is a bit limited, so I was hoping to work in mayavi. Mike -- Michael Zingale Associate Professor Dept. of Physics & Astronomy • Stony Brook University • Stony Brook, NY 11794-3800 *phone*: 631-632-8225 *e-mail*: Michael.Zingale(a)stonybrook.edu *web*: http://www.astro.sunysb.edu/mzingale

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About using mapserver
by 吳佳鴻 25 Jul '14

25 Jul '14

Hi All, I’m new to yt’s mapserver function. I’m trying this feature with a sample FLASH data which I got from data hub on my current yt (2.6 version). However, error message came out like the following. And when I used browser to connect to http://127.0.0.1:8080/, I got nothing. Is there anything that I did it in wrong way? Any suggestion is welcome. Thank you in advance. Many thanks, Jia-Hung Wu =======Error Message============= Bottle server starting up (using RocketServer())... Listening on http://127.0.0.1:8080/ Use Ctrl-C to quit. Rocket.Errors.ThreadPool: [INFO ] 2014-07-24 21:20:52,711 Starting Rocket 1.2.3 Rocket.Errors.ThreadPool: [INFO ] 2014-07-24 21:20:52,718 Listening on sockets: 127.0.0.1:8080 =====================

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problem writing fits image
by Juan Camilo Ibanez Mejia 24 Jul '14

24 Jul '14

Dear yt users, I was trying to generate a FITS file from one of my simulations but I obtained an error I do not understand and do not know how to solve. I followed the procedure in: http://yt-project.org/docs/dev-3.0/visualizing/writing_fits_images.html and in the moment I call fib = FITSImageBuffer(cvg, fields=["density"]) I obtain the error: --------------------------------------------------------------------------- AttributeError Traceback (most recent call last) <ipython-input-87-25a548a040e2> in <module>() ----> 1 fib = FITSImageBuffer(cvg, fields=["density"]) /home/jcibanezm/codes/yt30/yt-x86_64/src/yt-hg/yt/utilities/fits_image.pyc in __init__(self, data, fields, units, center, scale, wcs) 104 mylog.info("Making a FITS image of field %s" % (key)) 105 if first: --> 106 hdu = pyfits.PrimaryHDU(np.array(img_data[key])) 107 first = False 108 else: AttributeError: 'NoneType' object has no attribute 'PrimaryHDU' Any idea how can I solve this ? thanks in advance Juan _____________________________ Juan Camilo Ibañez Mejia PhD candidate in physics Institute für Theoretische Astrophysik Heidelberg University jibanez(a)zah.uni-heidelberg.de<mailto:jibanez@zah.uni-heidelberg.de> Research Scholar Department of Astrophysics American Museum of Natural History +1-212-313-7435 jibanezmejia(a)amnh.org<mailto:jibanezmejia@amnh.org> _____________________________

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Active Particles
by John Regan 24 Jul '14

24 Jul '14

Hi All, I'm having trouble reading Active Particle data from Enzo-3.0 outputs. . . . dd = pf.h.all_data() print dd["RadiationParticle", "particle_position_x"] . . gives File "PrintActiveParticleInfo.py", line 18, in <module> print dd["RadiationParticle", "particle_position_x"] File "/homeappl/home/regan/appl_taito/YT/Dev/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 325, in __getitem__ self.get_data(key) File "/homeappl/home/regan/appl_taito/YT/Dev/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 2627, in get_data if self._generate_field(field): File "/homeappl/home/regan/appl_taito/YT/Dev/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 358, in _generate_field raise KeyError(field) KeyError: ('RadiationParticle', 'particle_position_x') >From dumping the hdf5 file the dataset (particle_position_x) exists in the group RadiationParticle. I'm probably missing something simple.... but any hints would be appreciated! Oh I'm using yt-2.7.dev John P.S. Is there documentation on the yt website for reading Enzo-3.0 outputs? (yt-x86_64)[regan@taito-login3 GeneralRoutines]$ yt version yt module located at: /homeappl/home/regan/appl_taito/YT/Dev/yt-x86_64/src/yt-hg The supplemental repositories are located at: /homeappl/home/regan/appl_taito/YT/Dev/yt-x86_64/src/yt-supplemental The current version and changeset for the code is: --- Version = 2.7-dev Changeset = e89295c7393d --- This installation CAN be automatically updated. yt dependencies were last updated on Tue Dec 3 18:24:50 EET 2013 To update all dependencies, run "yt update --all". (yt-x86_64)[regan@taito-login3 GeneralRoutines]$

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yt-users July 2014