Mailman 3 November 2020 - yt-users

Porting .ply files to Blender with colors?
by Jill P. Naiman 15 Aug '22

15 Aug '22

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

3 2

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

8 14

Changing coordinate system in yt
by trobolo dinni 06 Dec '20

06 Dec '20

Dear yt users, I have a common envelope simulation where two stars orbit each other. The cores of the stars are approximated by point-masses. I would like to move my coordinate system on the core of one of them with the x axis aligned with the semi-major axis of the orbit, so as to be able to analyse the data in a co-rotating coordinate system. Is there any pre-built function in yt that allows moving the coordinates system to a specific point of the box and rotate them? Or I have to do it manually? Thanks, Roberto

2 1

Axes formatting in projection plots
by Sam Patrick 06 Dec '20

06 Dec '20

Hi all, is there any option when performing a density plot with OffAxisProjectionPlot to specify whether the axes in the resulting image are labelled "x/y (pc)" or "image x/y (pc)"? I would like to output images with the latter formatting enabled. Many thanks, Sam Patrick

3 2

Shearing Periodic Conditions
by Michael Jennings 06 Dec '20

06 Dec '20

Hello All, To my understanding periodicity can be set to True for strictly pure periodic conditions. My question is if anyone has found any easy work around within yt for dealing with shearing periodic boundary conditions? I have data sets from a simulation that used the shearing box approximation and would like my yt data objects to be “aware” of shearing periodic conditions in the x direction and strictly periodic in the y direction. Has anyone find a good solution for this situation? Thanks, Michael

2 1

comoving scale annotation?
by Salome Mtchedlidze 05 Dec '20

05 Dec '20

Hello again, I am using yt slices and projections with scale annotation. I have my plots in comoving units ("Mpccm/h") but whenever I want to use the same units for annotation: slc.annotate_scale(corner='lower_right', coeff=10, units='Mpccm/h'), yt does not recognize these units. Am I missing something or only the physical scale annotation is possible ? Thanks, Salome

3 10

ANN: yt 3.6.1 release
by Madicken Munk 13 Nov '20

13 Nov '20

Hello yt friends! yt 3.6.1 is now out! It includes one backport: matplotlib 3.3.x support. See PR 2754 <https://github.com/yt-project/yt/pull/2754> and the initial bug report at 2752 <https://github.com/yt-project/yt/issues/2752> . For release notes, see https://yt-project.org/doc/reference/changelog.html#version-3-6-1. Binaries for yt 3.6.1 are available via pip and conda. If you installed via the install script or use conda to manage your python installation, you can update yt via: $ conda update -c conda-forge yt And via pip if you manage your python installation with pip: $ pip install -U yt As always, if you have any questions, concerns, or run into any trouble updating please don’t hesitate to send a message to the mailing list or stop by our Slack workspace. Thanks for being in the community! - the yt development team

1 0

2nd Announcement of yt user conference: RHytHM
by Stephanie Tonnesen 02 Nov '20

02 Nov '20

Calling any and all yt-users! I am pleased to send out the 2nd announcement for *RHytHM:* *R*esearc*H* using *yt* *H*ighlights *M*eeting! *It is taking place Dec 9-11 for a few hours each day, and if you sign up early enough (Nov 16) we will try to account for your time zone when settling on the exact hours!* The goal of the meeting is for yt users to share how yt helps them with their research. Sharing how yt helps *your *workflow may inspire the rest of us to use yt in a way we had never even considered! We are so excited to see what everyone is up to, and to make life easy, when you sign up for a talk, *you can choose* if it is a longer, more detailed talk (25+5), a shorter talk (15+5), or a lightning-style quick look at something for which you use yt (5 mins). This is meant to be a fun, informal meeting, so sign up to talk about *any* aspect of yt *you* use! As a yt user, let me share some talk ideas I hope *YOU* sign up to give: *--*Share why phaseplots are the best plots *(I could look at **phaseplots** for a whole conference, honestly)* --Share a new colormap that beats kamae *(a low bar, possibly? ...or impossibly high?)* *--*Show how phaseplots let you compare simulations to observations! *(to figure out if the simulation in which we live is flawed)* --Show how slices are way better than projections for your work *(I'll believe it when I see it)* --Explain a neat way you select data *(is cut_region your friend, too?)* --Walk me through your yt extension! *(so many cool things use yt: https://yt-project.org/extensions.html <https://yt-project.org/extensions.html>, is yours on the list?)* *-*-Show how phaseplots can sometimes be basically a projection, but BETTER. *(phaseplots are so useful, amiright?)* --Two words: volume. rendering. (*more words: is it scientifically helpful or just gorgeous?)* --A plot you can't quite make using yt that you feel like *should just work*! *(lines on phaseplots, anyone?)* *--*Surprise me with a phaseplot I haven't thought of! *(other things than phaseplots are acceptable)* *Please take a look and register (by Nov 16) if interested! Share with your networks! *https://indico.flatironinstitute.org/event/722/ We look forward to seeing many of you (on zoom) in December! Best, The SOC Stephanie Tonnesen Matt Turk Madicken Munk John Zuhone -- Dr. Stephanie Tonnesen Associate Research Scientist CCA, Flatiron Institute New York, NY stonnes(a)gmail.com

1 0

problem with matplotlib
by Siegfried Vanaverbeke 02 Nov '20

02 Nov '20

All, I am testing a script on both windows and linux, but the latest version of yt seems to have a conflict with matplotlib: python yt_plots.py /home/siegfried/anaconda3/envs/science/lib/python3.8/_collections_abc.py:666: MatplotlibDeprecationWarning: The global colormaps dictionary is no longer considered public API. self[key] Traceback (most recent call last): File "yt_plots.py", line 3, in <module> import yt File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/__init__.py", line 63, in <module> from yt.fields.api import \ File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/fields/api.py", line 19, in <module> from . import angular_momentum File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/fields/angular_momentum.py", line 26, in <module> from .vector_operations import \ File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/fields/vector_operations.py", line 32, in <module> from yt.geometry.geometry_handler import \ File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/geometry/geometry_handler.py", line 29, in <module> from yt.utilities.parallel_tools.parallel_analysis_interface import \ File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 30, in <module> from yt.data_objects.image_array import ImageArray File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/data_objects/image_array.py", line 18, in <module> from yt.visualization.image_writer import write_bitmap, write_image File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/visualization/image_writer.py", line 29, in <module> import yt.utilities.png_writer as pw File "/home/siegfried/anaconda3/envs/science/lib/python3.8/site-packages/yt/utilities/png_writer.py", line 13, in <module> import matplotlib._png as _png ModuleNotFoundError: No module named 'matplotlib._png' It tries to import a package that doesn't exist. Any idea how this mistake came about ? warmest regards, Siegfried Vanaverbeke

2 2