Mailman 3 October 2014 - yt-dev

Issue #927: Field parameter registry (yt_analysis/yt)
by Nathan Goldbaum 19 Oct '14

19 Oct '14

New issue 927: Field parameter registry https://bitbucket.org/yt_analysis/yt/issue/927/field-parameter-registry Nathan Goldbaum: I think we should have some sort of field parameter registry. Now that field parameters can have units, we need to somehow know what the units are when we mock up the field parameter during field detection. I think the easiest way to do this would be to explicitly add user-defined field parameters to a `dataset` instance after it is loaded in memory, sort of like particle filters. Before creating a full YTEP for this, I'm opening this issue to facilitate discussion and to check if people think this is a good idea.

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Issue #926: cylindrical_radial_velocity does not look right (yt_analysis/yt)
by Suoqing Ji 19 Oct '14

19 Oct '14

New issue 926: cylindrical_radial_velocity does not look right https://bitbucket.org/yt_analysis/yt/issue/926/cylindrical_radial_velocity-… Suoqing Ji: Recently I just found that ``cylindrical_radial_velocity`` in yt3 does not give me what I expect. To test this, I setup a 3-D Sedov problem with domain ``[-0.5, 0.5]^3`` and explosion center at ``[0, 0, 0]``, and plot the ``cylindrical_radial_velocity`` as the following image. According to the pattern of the velocity streamline, the cylindrical radial velocity should be positive. ![sedov_hdf5_chk_0001_Slice_z_cylindrical_radial_velocity_original.png](https://bitbucket.org/repo/BXbAb/images/2310642957-sedov_hdf5_chk_0001_Slice_z_cylindrical_radial_velocity_original.png) I don't understand in the function of ``_cylindrical_radial`` in [yt/fields/vector_operations.py](https://bitbucket.org/yt_analysis/yt/src/10…: ``` #!python def _cylindrical_radial(field, data): normal = data.get_field_parameter("normal") vectors = obtain_rv_vec(data, (xn, yn, zn), "bulk_%s" % basename) theta = resize_vector(data["index", 'cylindrical_theta'], vectors) return get_cyl_r_component(vectors, theta, normal) ``` what does the line of ``resize_vector`` do. If I replace this simply with line ``theta = data['cylindrical_theta']``, it will give the image I expected as the following. ![sedov_hdf5_chk_0001_Slice_z_cylindrical_radial_velocity_modified.png](https://bitbucket.org/repo/BXbAb/images/2376359990-sedov_hdf5_chk_0001_Slice_z_cylindrical_radial_velocity_modified.png) In addition, if I want to plot the same field for a 2-D Sedov dataset, the error of ``yt.utilities.exceptions.YTFieldNotFound: Could not find field '('all', 'cylindrical_radial_velocity')'`` will be raised. However, if changing the line ``` #!python vectors = obtain_rv_vec(data, (xn, yn, zn), "bulk_%s" % basename) ``` into ``` #!python vectors = obtain_rv_vec(data) ``` the correct image will be generated without raising any error. But I'm not very certain what's the correct way to fix this.

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Summary of yt Team Meeting 2
by Cameron Hummels 18 Oct '14

18 Oct '14

Hello everyone, Yesterday morning, we held the second yt Team Meeting as per the governance YTEP. We had representatives from each of the 5 subcomponents of the code, as well as several additional attendees since it was held at the same time as the yt development workshop at NCSA. I personally think it worked really well to have so many people in attendance, as we were able to address issues more fully with a larger group. I would be in favor of having future meetings open to the full member base and potentially the full dev base. Nathan acted as scribe and took notes on what was discussed. You can see those here: https://docs.google.com/document/d/1CZgBOkvO3gZQwWUzcBEaCgqynVZlvoHXEiWiEYc… We had to finish the meeting somewhat abruptly and were unable to schedule a follow up meeting as well as the coordinator/scribe for that meeting. I propose that we hold the next meeting a month from now, on Friday 11/14. I propose that Hilary Egan be the organizer, since she was interested in hosting the last meeting, but due to a conflict was unable to do so. Are there any problems with this? Great job, everyone. Cameron -- Cameron Hummels Postdoctoral Researcher Steward Observatory University of Arizona http://chummels.org

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units_override PR is ready
by John ZuHone 18 Oct '14

18 Oct '14

Hi all, units_override is ready up here: https://bitbucket.org/yt_analysis/yt/pull-request/1236/wip-apichange-overri… <https://bitbucket.org/yt_analysis/yt/pull-request/1236/wip-apichange-overri…> I’ve touched a lot of frontends, so everyone who can should have a look, especially RAMSES and MOAB, since I had to make some changes there to prevent references to the dataset from being retained. When fido gives the green light and everyone is ok, it’s ready to go. Best, John

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Issue #925: Add an IsocontourPlot (yt_analysis/yt)
by Chris Malone 17 Oct '14

17 Oct '14

New issue 925: Add an IsocontourPlot https://bitbucket.org/yt_analysis/yt/issue/925/add-an-isocontourplot Chris Malone: Most visualization software provides the capability to make isocontour plots, even in 3d. We have a round-about way of doing this in a [cookbook recipe](http://yt-project.org/docs/3.0/cookbook/complex_plots.html#plotting…, but this should be much simpler for the user. Responsible: ChrisMalone

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Issue #924: Annotated annotate_grids? (yt_analysis/yt)
by Sam Skillman 17 Oct '14

17 Oct '14

New issue 924: Annotated annotate_grids? https://bitbucket.org/yt_analysis/yt/issue/924/annotated-annotate_grids Sam Skillman: According to the documentation: http://yt-project.org/doc/visualizing/callbacks.html#overplot-grids One should be able to annotate the grid lines with the grid id. Looks like this functionality is gone: ``` #!python In [2]: sl.annotate_grids(annotate=True) --------------------------------------------------------------------------- TypeError Traceback (most recent call last) /home/skillman/local/yt-x86_64/src/yt-3.0/yt/mods.py in <module>() ----> 1 sl.annotate_grids(annotate=True) /home/skillman/local/yt-x86_64/src/yt-3.0/yt/visualization/plot_container.pyc in newfunc(*args, **kwargs) 68 rv = f(*args, **kwargs) 69 args[0]._plot_valid = False ---> 70 args[0]._setup_plots() 71 return rv 72 return newfunc /home/skillman/local/yt-x86_64/src/yt-3.0/yt/visualization/plot_window.pyc in _setup_plots(self) 861 label.set_fontproperties(fp) 862 --> 863 self.run_callbacks(f) 864 865 if draw_axes is False: /home/skillman/local/yt-x86_64/src/yt-3.0/yt/visualization/plot_container.pyc in run_callbacks(self, f) 312 cbw = CallbackWrapper(self, self.plots[f], self.frb, f) 313 CallbackMaker = callback_registry[name] --> 314 callback = CallbackMaker(*args[1:], **kwargs) 315 callback(cbw) 316 for key in self.frb.keys(): TypeError: __init__() got an unexpected keyword argument 'annotate' ``` GridBoundaryCallback has an init like this now: ``` #!python 392 def __init__(self, alpha=0.7, min_pix=1, min_pix_ids=20, draw_ids=False, 393 periodic=True, min_level=None, max_level=None, 394 cmap='B-W LINEAR_r', edgecolors=None, linewidth=1.0): ```

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Nomination: Jill Naiman
by Matthew Turk 17 Oct '14

17 Oct '14

I'd like to nominate Jill Naiman as a yt member. Jill has been participating in the yt community for some time now, and has pushed forward integration with Blender, Python3, and has also made the awesome astroblend.com site. https://ytep.readthedocs.org/en/latest/YTEPs/YTEP-1776.html -Matt

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Fwd: [Py-CU] Fwd: Heartland Maker Fest is coming! Sat. Oct 18 10-4pm @ Lincoln Square
by Matthew Turk 17 Oct '14

17 Oct '14

Hi all, For those of you at the workshop whose flights don't leave until Saturday afternoon, this might be a fun diversion... :) Matt ---------- Forwarded message ---------- From: "E.W." <elliewix(a)gmail.com> Date: Oct 16, 2014 9:36 PM Subject: [Py-CU] Fwd: Heartland Maker Fest is coming! Sat. Oct 18 10-4pm @ Lincoln Square To: <py-cu(a)lists.py-cu.org> Cc: FYI, the Heartland Maker Fest is coming up this Saturday! Py-CU will have a table with live coding. This is fantastic event run out our parent organization, Makerspace Urbana. Elizabeth ---------- Forwarded message ---------- From: Heartland Maker Fest <Contact(a)heartlandmakerfest.org> Date: Thu, Oct 16, 2014 at 12:24 PM Subject: Heartland Maker Fest is coming! Sat. Oct 18 10-4pm @ Lincoln Square To: <http://heartlandmakerfest.org/> *Saturday October 18th, 2014 - **10am - 4pm * * Lincoln Square Mall in UrbanaFree Admission!* Join us this Saturday for our annual Heartland Maker Fest <http://heartlandmakerfest.org/>! This is a one-day, family-friendly event that celebrates arts, crafts, engineering, music, science, and technology projects and the Do-It-Yourself spirit in our community. This year we will feature a wonderful list of *guest speakers <http://heartlandmakerfest.org/speakers/>* and set up a giant *Quadcopter Obstacle Course <http://heartlandmakerfest.org/577-2/>* brought to us by River City Labs Makerspace in Peoria. *Over 20 wonderful local** makers i**ncluding:* - Kunstwurfelspiel <http://heartlandmakerfest.org/meet-the-makers-kunstwurfelspiel-academy-of-c…> - An Academy of Creative Coding - Society for Creative Anachronism <http://heartlandmakerfest.org/meet-the-makers-society-for-creative-anachron…> - Spin your own yarn - Makerspace Urbana <http://makerspaceurbana.org/> - Come learn to solder - Trashion Fashion <http://heartlandmakerfest.org/meet-the-makers-trashion-fashion/> - Making fashion from trash - CUDO Plays <http://heartlandmakerfest.org/meet-the-makers-cudo-plays/> - Game design competition - Central Illinois Aeprospace <http://heartlandmakerfest.org/central-illinois-aerospace/> - Yup they got rockets - and many many more <http://heartlandmakerfest.org/2014-makers/>! *Quadcopter Obstacle Course:* Do you have a quadcopter? Well, bring it to this year’s event and give a spin through the massive obstacle course brought to you by River City Labs Makerspace <http://rivercitylabs.org/> in Peoria! More details here <http://heartlandmakerfest.org/577-2/>. *Guest Speakers Schedule:* (Presentations will be on the stage near the center of the mall) 10:30am *Makerspace Urbana and the Heartland Maker Fest* Emily Knox *Assistant Professor, **GSLIS* 11:00am *Info City* Christopher Hamb *Founder, Director of New Media, Chrisp Media, LLC* 11:30am *Call for Participation: Collaborative Community Art* elizaBeth Simpson *Strategic Artistry * 12:00pm *Servers to your Devices, Broad Overview of the Internet* Yonathan Tulu *Software and Hardware Engineer and Organizer* 12:30pm *Why Making Matters: Stories from the Fab Lab* Jeff Ginger *Operations Manager for CU Community Fab Lab* 2:00pm *Latin American Hack Labs* Anita Chan *Assistant Professor, Media & Cinema Studies* 2:30pm *Animation, Quilting & Embroidery* Nina Paley *Animator, Artist, Free Culture Proponent* 3:00pm *Workers and Weirdos: Youth Arts Programs in the US* Tyler Denmead *Assistant Professor, Media & Cinema Studies* *More ways to connect:* Like us on Facebook <https://www.facebook.com/heartlandmakerfest> Join the Event <https://www.facebook.com/events/1487664831505630/> Follow us on Twitter <https://twitter.com/heartlandmf> *Interested in volunteering? * We still need people, sign-up here. <https://docs.google.com/forms/d/1Y6maWklulCF4nHO8z-3M9ZmNFL80AvrpJTxGVRAKbq…> Or help out by sending this email along to friends! *Parking:* There is free parking around the mall at: 201 Lincoln Square <https://www.google.com/maps/place/201+Lincoln+Square,+Urbana,+IL+61801+art_…> Urbana, IL 61801 <https://www.google.com/maps/place/201+Lincoln+Square,+Urbana,+IL+61801+art_…> See you Saturday! Thanks!! Heartland Maker Fest Planning Committee -- heartlandmakerfest.org makerspaceu.org Facebook <https://www.facebook.com/heartlandmakerfest> Twitter <https://twitter.com/heartlandmf> _______________________________________________ Py-CU mailing list Py-CU(a)lists.py-cu.org http://lists.py-cu.org/listinfo.cgi/py-cu-py-cu.org

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data_source in YTSelections
by Douglas Harvey Rudd 16 Oct '14

16 Oct '14

Hi all, I just submitted PR #1264 which adds a data_source parameter to all YTSelectionContainer classes (except those in construction_data_containers.py). This is apparently a long-standing desired feature request (Issue #521), so please test it and see if it works for you. An example script that shows a slice through a sphere object can be downloaded here: http://paste.yt-project.org/show/5167/ Douglas Rudd Scientific Computing Consultant Research Computing Center drudd(a)uchicago.edu

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Issue #923: to_pw should raise an error if it would produce a plot with an empty field list (yt_analysis/yt)
by Nathan Goldbaum 16 Oct '14

16 Oct '14

New issue 923: to_pw should raise an error if it would produce a plot with an empty field list https://bitbucket.org/yt_analysis/yt/issue/923/to_pw-should-raise-an-error-… Nathan Goldbaum: This can happen if a user does not preload a field on a data source and then calls `to_pw` with no arguments. Responsible: ngoldbaum

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