<div dir="ltr"><div><div><div><div>Hi Nathan,<br></div>I will complete that formulaire. Close to the end of the log file it says:<br>"Removing old build environment<br>BUILD START: rockstar-1.0.0-0"<br></div>Previus to installing I removed the whole directory of the stable version.<br></div>It talks about an "old" environment.<br></div>Thanks<br><div><div><br><div><div><div><div><div><br></div></div></div></div></div></div></div></div><div class="gmail_extra"><br><div class="gmail_quote">2016-07-12 14:16 GMT-03:00 Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@gmail.com</a>></span>:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><br><div class="gmail_extra"><br><div class="gmail_quote"><div><div class="h5">On Tue, Jul 12, 2016 at 12:14 PM, Martín Mestre <span dir="ltr"><<a href="mailto:martinmestrec@gmail.com" target="_blank">martinmestrec@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr"><div><div><div>Hi Nathan,<br></div>thank you for your email. I tried to install the development version of yt <br></div>but I failed.<br> <br></div><div>Settings:<br>INST_CONDA=1 <br>INST_YT_SOURCE=1 <br>INST_ROCKSTAR=1 <br>INST_SCIPY=1 <br>INST_H5PY=1 <br>INST_ASTROPY=0 <br>INST_NOSE=1 <br><br></div><div>The last lines of the log file are below.<br></div><div>Thank you very much.<br></div><div>Martín<br></div><div><br></div>------------------<br>+ mkdir /home/mmestre/ytProject/yt-conda/envs/_build/lib<br>+ cp librockstar.so /home/mmestre/ytProject/yt-conda/envs/_build/lib/<br>Removing old build environment<br>BUILD START: rockstar-1.0.0-0<br>Package: rockstar-1.0.0-0<br>source tree in: /home/mmestre/ytProject/yt-conda/conda-bld/work<br>number of files: 1<br>Fixing permissions<br>patchelf: file: /home/mmestre/ytProject/yt-conda/envs/_build/lib/librockstar.so<br> setting rpath to: $ORIGIN/.<br>Fixing permissions<br>BUILD END: rockstar-1.0.0-0<br>Nothing to test for: rockstar-1.0.0-0<br># If you want to upload this package to <a href="http://anaconda.org" target="_blank">anaconda.org</a> later, type:<br>#<br># $ anaconda upload /home/mmestre/ytProject/yt-conda/conda-bld/linux-64/rockstar-1.0.0-0.tar.bz2<br>#<br># To have conda build upload to <a href="http://anaconda.org" target="_blank">anaconda.org</a> automatically, use<br># $ conda config --set anaconda_upload yes<br><br>EXECUTING:<br> conda install /home/mmestre/ytProject/yt-conda/conda-bld/linux-64/rockstar-1.0.0-0.tar.bz2<br>An unexpected error has occurred, please consider sending the<br>following traceback to the conda GitHub issue tracker at:<br><br> <a href="https://github.com/conda/conda/issues" target="_blank">https://github.com/conda/conda/issues</a><br><br>Include the output of the command 'conda info' in your report.<br><br><br>Traceback (most recent call last):<br> File "/home/mmestre/ytProject/yt-conda/bin/conda", line 6, in <module><br> sys.exit(main())<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/cli/main.py", line 120, in main<br> exit_code = args_func(args, p)<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/cli/main.py", line 130, in args_func<br> exit_code = args.func(args, p)<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/cli/main_install.py", line 69, in execute<br> install(args, parser, 'install')<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/cli/install.py", line 203, in install<br> explicit(args.packages, prefix, verbose=not args.quiet)<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/misc.py", line 126, in explicit<br> index.update(get_index(**index_args))<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/api.py", line 22, in get_index<br> channel_urls = normalize_urls(channel_urls, platform, offline)<br> File "/home/mmestre/ytProject/yt-conda/lib/python2.7/site-packages/conda/config.py", line 250, in normalize_urls<br> url = urls[0]<br>KeyError: 0<br>---------------------------<br></div></blockquote><div><br></div></div></div><div>Hmm, frustrating. This seems to be a bug in conda (outside of our control, unfortuantely). Let me see if I can reproduce the issue or identify a workaround...</div><div><br></div><div>In the meantime, can you open an issue to track this?</div><div><br></div><div><a href="https://bitbucket.org/yt_analysis/yt/issues/new" target="_blank">https://bitbucket.org/yt_analysis/yt/issues/new</a><br></div><div><div class="h5"><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr"></div><div><div><div class="gmail_extra"><br><div class="gmail_quote">2016-07-11 12:07 GMT-03:00 Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@gmail.com</a>></span>:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr">Hi Martín,<div><br></div><div>Someone else should be able to help you with your halo catalog-specific questions, but I can help you out with some of these issues.</div><div class="gmail_extra"><br><div class="gmail_quote"><span>On Mon, Jul 11, 2016 at 9:45 AM, Martín Mestre <span dir="ltr"><<a href="mailto:martinmestrec@gmail.com" target="_blank">martinmestrec@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr"><div><div>Dear yt community,<br><br>a week ago I knew about this project and after reading a small part of the manual, the mission statement and the code of conduct I got encouraged to try to learn yt (and python). I would be very glad if I could use yt to study the structure of some disrupted satellites that I evolved with Gadget-2 (dark matter only). <br><br></div><div>I have installed yt and made a simple halo catalog but I am not sure if I have proceeded correctly. I have written some questions below. Thank you very much in advance for any answer or suggestion. <br><br></div><div>Best regards from La Plata, Argentina,<br></div><div><br>Martín Mestre<br><br><br></div><div>----------------<br></div><div>INSTALLATION<br><br>The Host information is: Linux seminare 2.6.37.1-mosix #2 SMP Tue Apr 19 12:57:51 ART 2011 x86_64 GNU/Linux.<br></div><div>I installed yt 3.2.3 as a simple cluster user in my home directory with the installation script. I have run the script a second time setting the option: INST_ROCKSTAR=1.<br></div><div><br>The installation log is too large for the pastebin. I have only pasted<br>the lines with the words "error" and "Error" respectively in the links:<br><a href="http://paste.yt-project.org/show/6657/" target="_blank">http://paste.yt-project.org/show/6657/</a> and<br><a href="http://paste.yt-project.org/show/6658/" target="_blank">http://paste.yt-project.org/show/6658/</a> .<br></div><div><br>The first/last 400 lines of the log are here:<br><a href="http://paste.yt-project.org/show/6659/" target="_blank">http://paste.yt-project.org/show/6659/</a> and<br><a href="http://paste.yt-project.org/show/6660/" target="_blank">http://paste.yt-project.org/show/6660/</a> .<br><br></div><div>How could I proceed to eliminate these errors ?<br></div></div></div></blockquote><div><br></div></span><div>We're getting ready to release yt 3.3, along with it a new version of the install script that is more robust. Can you delete your old yt installation and try re-running the version of the install script from yt's development branch:</div><div><br></div><div><a href="http://bitbucket.org/yt_analysis/yt/raw/yt/doc/install_script.sh" target="_blank">http://bitbucket.org/yt_analysis/yt/raw/yt/doc/install_script.sh</a><br></div><div><br></div><div>By default this will still install yt 3.2.3, but you can set INST_YT_SOURCE=1 to get the latest development version of yt. You will need to do this if you also want to install rockstar.</div><span><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><div dir="ltr"><div><div><br></div><div><br>-----------------------------------------------------------<br></div><div>LOADING GADGET-2 SNAPSHOT IN BINARY FORMAT<br></div><div>AND COMPUTATION OF HALO CATALOG<br></div><br><div>I have run the following scritp: <br><a href="http://paste.yt-project.org/show/6661/" target="_blank">http://paste.yt-project.org/show/6661/</a><br></div><div>and the log files was:<br><a href="http://paste.yt-project.org/show/6662/" target="_blank">http://paste.yt-project.org/show/6662/</a><br></div><div>I would like to know if everything looks right in the log file.<br></div><div><br>I wasn't able to upload the image file (36KB), saying:<br>ERROR HTTP Error 404: Not Found<br></div></div></div></blockquote><div><br></div></span><div>Yes, imgur changed their APIs, this issue will be fixed in yt 3.3.</div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex"><span><div dir="ltr"><div><div></div><div></div><div><br>I will be willing to send it by email because I have<br>a question to do about the use of the halo finder. <br>It found 8 halos, one of them many orders of magnitude more<br> massive than the rest. This was expected because it identifies <br>the stream progenitor. The location of this halo is much closer <br>to the centre of mass of the whole ensemble than to the point <br>of maximum density (which I had previusly found through the <br>method of the "shrinking spheres"). <br>Is there any scale parameter of the halo finder that allows me <br>to identify halo centres as the points of local maxima of the <br>volumetric density ?<br>----------------------------------------------------------<br></div><div>----------------------------------------------------------<br><br><br></div><div><br></div><div><br><br>.....<br><br></div><div><br><br></div></div></div>
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