Mailman 3 August 2012 - yt-users

Multiple output type
by REMUDIN RESHID MEKURIA 08 Aug '12

08 Aug '12

Dear all, Thank you in advance for your help. Having re-installed successfully the new version of yt, I tried to produce a simple slice with the new script: from yt.mods import * # Load the dataset. pf=load("plt00200") # Create density slices in all three axes. SlicePlot(pf, 'x', "Temp", width = (64000.0, 'kpc')).save() However, I keep on getting the following error, what am I doing wrong? with best regards, Remudin (yt-i386)REMUDIN-RESHID-MEKURIAs-MacBook-Pro:~ remudinreshidmekuria$ python check.py yt : [ERROR ] 2012-08-06 00:10:20,337 Multiple output type candidates for plt00200: yt : [ERROR ] 2012-08-06 00:10:20,337 Possible: NyxStaticOutput yt : [ERROR ] 2012-08-06 00:10:20,337 Possible: MaestroStaticOutput Traceback (most recent call last): File "check.py", line 5, in <module> pf=load("plt00200") File "/Users/remudinreshidmekuria/yt-i386/src/yt-hg/yt/convenience.py", line 87, in load raise YTOutputNotIdentified(args, kwargs) yt.utilities.exceptions.YTOutputNotIdentified: Supplied ('plt00200',) {}, but could not load! ------ Remudin Reshid Mekuria phone: +49 (0)551 39-13805 IAG, Friedrich-Hund-Plaz 1 fax: +49 (0)551 39-5043 D-37077 Goettingen Germany

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Make projections for uniform grid FLASH4 data
by Ji Suoqing 08 Aug '12

08 Aug '12

Hi all, I'm trying to make projections for uniform grid FLASH4 data with the most updated YT, but there're errors when adding projections: yt : [WARNING ] 2012-08-07 23:13:56,239 integer runtime parameter checkpointfilenumber overwrites a simulation scalar of the same name yt : [INFO ] 2012-08-07 23:13:56,244 Parameters: current_time = 0.0 yt : [INFO ] 2012-08-07 23:13:56,245 Parameters: domain_dimensions = [512 256 1] yt : [INFO ] 2012-08-07 23:13:56,245 Parameters: domain_left_edge = [ 1.50000000e+07 -6.55360000e+09 0.00000000e+00] yt : [INFO ] 2012-08-07 23:13:56,245 Parameters: domain_right_edge = [ 2.62144000e+10 6.55360000e+09 1.74532925e-02] yt : [INFO ] 2012-08-07 23:13:56,245 Parameters: cosmological_simulation = 0.0 yt : [INFO ] 2012-08-07 23:13:56,587 Max Value is 2.46340e+06 at 38378027.3437500000000000 6400000.0000000000000000 0.5000000000000000 in grid FLASHGrid_0033 ([128 128 1]) at level 0 (1, 0, 0) yt : [INFO ] 2012-08-07 23:13:56,587 Created plot collection with default plot-center = [13114700000.0, 0.0, 0.0087266462599716477] Traceback (most recent call last): File "proj.py", line 18, in <module> p1 = pc.add_projection(my_var, 2) File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/visualization/plot_collection.py", line 784, in add_projection **field_parameters) File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 1697, in __init__ self._initialize_source(source) File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 1724, in _initialize_source source = self.pf.h.all_data() File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/data_objects/hierarchy.py", line 188, in all_data pf.domain_left_edge, pf.domain_right_edge) File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 3221, in __init__ self._refresh_data() File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 315, in _refresh_data self.get_data() File "/aphelion/jisuoqing/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 2508, in get_data raise YTNoDataInObjectError(self) yt.utilities.exceptions.YTNoDataInObjectError: The object requested has no data included in it. And another separated question: how can I add axis ticks onto projection or slice plot to show the spacial scale? I suspect there should exist some easy way, but I failed to find it. Thanks for your care! All best, Suoqing

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Crashing PDFs and Login screen after Yt installation
by Héctor Aceves Campos 06 Aug '12

06 Aug '12

Dear all I have recently tried to install Yt, including Enzo, with the installation script provided in the Yt webpage; setting the Enzo flag=1 and installing as superuser in /usr/local all the files I had the following two problems: 1) the enzo clone was not installed... just before finishing the script said something like Python SSL not found or supported, and the enzo installation was aborted. 2) After all this, I was not able to (a) open any pdf file either with evince or xpdf (under linux; either ubuntu 10.04 and linux mint 13 - running gnome), (b) login .. my "welcome screen" was off, completely gone or black as in my laptop (a toshiba with linux mint). so I could not login! In the case of my desktop at work, I had to reinstall the operating system. Have any of the people of this forum seen this kind of problems? Any ideas what might have gone wrong or how to fix this? cheers, hector

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Re: [yt-users] Installing error.
by Matthew Turk 06 Aug '12

06 Aug '12

Hi Ariel, Ah, sorry it threw the error! If you are on Ubuntu, try: sudo apt-get install uuid-dev And let us know if that fixes it. You should be able to simply rerun the script after this. -Matt On Aug 4, 2012 9:05 PM, "Ariel Werle" <ariel.werle(a)gmail.com> wrote:

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Installing error.
by Ariel Werle 05 Aug '12

05 Aug '12

Greetings. On the install script I get the following error: checking for uuid_generate in -luuid... no configure: error: cannot link with -luuid, install uuid-dev. Any hints on how to fix it? -- Ariel Werle.

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YT installation
by Sherwood Richers 04 Aug '12

04 Aug '12

Hello, I tried installing YT on my (Ubuntu 12.04 x86_64) laptop and got the following error messages when the install script tried updating. I also tried starting python and executing "import hashlib" and got the same messages. Does anybody know the cause of this or what I can do to fix the errors? (I don't know if it's of any relevance, but there were also a bunch of warnings in the attached install log). Thanks a ton. -Sherwood Installing Forthon-0.8.5 (arguments: 'Forthon-0.8.5') Doing yt update, wiping local changes and updating to branch stable ERROR:root:code for hash sha224 was not found. Traceback (most recent call last): File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha224 ERROR:root:code for hash sha256 was not found. Traceback (most recent call last): File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha256 ERROR:root:code for hash sha384 was not found. Traceback (most recent call last): File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha384 ERROR:root:code for hash sha512 was not found. Traceback (most recent call last): File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/home/sherwood/yt-x86_64/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha512 Installing yt Failure. Check /home/sherwood/yt-x86_64/yt_install.log.

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yt update error
by Latif 03 Aug '12

03 Aug '12

Hi all, I tried to update the my old version of yt and got the following error. I did some google search, it seems that problem occurs due to version conflicts with python and mercirial. Any ideas how to fix this issue. Thanks in advance! Latif https://groups.google.com/forum/#!msg/scmmanager/tpO80fdUXYU/rHGN6Ga7MIwJ File "/home/astro73/mlatif/YT/yt-x86_64/lib/python2.7/site-packages/mercurial/statichttprepo.py", line 11, in <module> import changelog, byterange, url, error File "/home/astro73/mlatif/YT/yt-x86_64/lib/python2.7/site-packages/mercurial/url.py", line 13, in <module> import httpconnection as httpconnectionmod File "/home/astro73/mlatif/YT/yt-x86_64/lib/python2.7/site-packages/mercurial/httpconnection.py", line 16, in <module> from mercurial import httpclient File "/home/astro73/mlatif/YT/yt-x86_64/lib/python2.7/site-packages/mercurial/httpclient/__init__.py", line 48, in <module> import socketutil File "/home/astro73/mlatif/YT/yt-x86_64/lib/python2.7/site-packages/mercurial/httpclient/socketutil.py", line 82, in <module> class FakeSocket(httplib.FakeSocket): AttributeError: 'module' object has no attribute 'FakeSocket

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yt 2.4 release announcement
by Nathan Goldbaum 03 Aug '12

03 Aug '12

Dear Colleagues, We’re proud to announce the release of version 2.4 of the yt Project, http://yt-project.org/ . The new version includes many new features, refinements of existing features and numerous bugfixes. We encourage all users to upgrade to take advantage of the changes. yt is a community-developed analysis and visualization toolkit, primarily directed at astrophysical hydrodynamics simulations. It provides full support for output from the Enzo, FLASH, Orion, and Nyx codes, with preliminary support for several others. It provides access to simulation data using an intuitive python interface, can perform many common visualization tasks and offers a framework for conducting data reductions and analysis of simulation data. The most visible changes with the 2.4 release include: * A threaded volume renderer, which has been completely rewritten for speed, clarity and extensibility * A new plotting mechanism, the “Plot Window,” for easier and more efficient visualization * Many improvements to time series analysis, including auto-parallelization * A complete rewrite of the Web GUI for yt including a WebGL 3D scene and substantial user interface improvements * Integration with the new yt Hub (http://hub.yt-project.org/ ) for sharing of data, scripts and images * Extensive additions and improvements to the cookbook For a complete list of changes in this release, please visit the Changelog ( http://yt-project.org/docs/2.4/changelog.html ). Information about the yt project, including installation instructions, can be found on the homepage: http://yt-project.org/ Development of yt has been sponsored by the NSF, the DOE, and various universities. We develop yt in the open and encourage contributions from users who extend and improve the code. We invite you to get involved with developing and using yt! Please forward this announcement to other interested parties. Sincerely, The yt development team

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Re: [yt-users] Quiver normalization
by Massimo Gaspari 02 Aug '12

02 Aug '12

Thank you JC, the plot looks better. So, on any png image produced by YT, if I set "inches", the arrow unit length is always exactly one inch? Or is there any kind of device rescaling (e.g., using different resolutions)? Cheers, Max From: gaspmax(a)hotmail.com To: yt-users(a)lists.spacepope.org Subject: Quiver normalization Date: Wed, 1 Aug 2012 17:04:03 +0200 Hi guys, how can I set a given normalization for the velocity field superposed to a slice? p.modify["velocity"](factor=13) I am a bit puzzled by the "scale" keyword. E.g., I want to set 1000 km/s as the normalization for all the slices of a simulation. Thanks, MaxWebRepcurrentVotenoRatingnoWeight

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Quiver normalization
by Massimo Gaspari 02 Aug '12

02 Aug '12

Hi guys, how can I set a given normalization for the velocity field superposed to a slice? p.modify["velocity"](factor=13) I am a bit puzzled by the "scale" keyword. E.g., I want to set 1000 km/s as the normalization for all the slices of a simulation. Thanks, Max

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