<div dir="ltr"><div><div><div><div>Hi Nathan,<br><br></div>It looked like that did it, after I did pip install -U pip then I could install matplotlib, but I am still getting the same error message when my code tries to import numpy:<br><br>Traceback (most recent call last):<br> File "yt_slicesonly_allouts.py", line 2, in <module><br> import numpy as np<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/numpy/__init__.py", line 180, in <module><br> from . import add_newdocs<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/numpy/add_newdocs.py", line 13, in <module><br> from numpy.lib import add_newdoc<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/numpy/lib/__init__.py", line 8, in <module><br> from .type_check import *<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/numpy/lib/type_check.py", line 11, in <module><br> import numpy.core.numeric as _nx<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/numpy/core/__init__.py", line 14, in <module><br> from . import multiarray<br>ImportError: libopenblas.so.0: cannot open shared object file: No such file or directory<br><br></div>If you think I need to reinstall yt at this point, I can just go ahead and do that.<br><br></div>Thanks!<br></div>Stephanie<br></div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div><div><font face="garamond,serif">--<br>Dr. Stephanie Tonnesen<br></font></div><font face="garamond,serif">Alvin E. Nashman Postdoctoral Fellow<br></font></div><font face="garamond,serif">Carnegie Observatories, Pasadena, CA<br></font></div><font face="garamond,serif"><a href="mailto:stonnes@gmail.com" target="_blank">stonnes@gmail.com</a><br></font></div></div></div>
<br><div class="gmail_quote">On Fri, Jun 24, 2016 at 1:33 PM, Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hmm, this is annoying. Pip itself seems to be broken, or has broken itself in the process of updating matplotlib. I'm sorry that my advice put you into a situation that's hard to recover from.<div><br></div><div>Can you update pip itself?<div><br></div><div>$ pip install -U pip</div><div><br></div><div>If you're not able to do that and pip itself is completely broken, you should be able to recreate a working python environment from scratch by re-running the install script:</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><span class="HOEnZb"><font color="#888888"><br></font></span></div></div><span class="HOEnZb"><font color="#888888"><div><br></div><div>-Nathan</div></font></span></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">On Fri, Jun 24, 2016 at 3:10 PM, Stephanie Tonnesen <span dir="ltr"><<a href="mailto:stonnes@gmail.com" target="_blank">stonnes@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div>Hi Nathan,<br><br></div>So I tried to do that and now yt is totally broken. <br><br>Here is the printout after I typed in <br>$pip install -U matplotlib<div><br></div><br>Collecting matplotlib<br> Downloading matplotlib-1.5.1.tar.gz (54.0MB)<br> 100% |################################| 54.0MB 8.8kB/s <br>Collecting numpy>=1.6 (from matplotlib)<br> Downloading numpy-1.11.0.tar.gz (4.2MB)<br> 100% |################################| 4.2MB 105kB/s <br>Collecting python-dateutil (from matplotlib)<br> Downloading python_dateutil-2.5.3-py2.py3-none-any.whl (201kB)<br> 100% |################################| 204kB 1.2MB/s <br>Collecting pytz (from matplotlib)<br> Downloading pytz-2016.4-py2.py3-none-any.whl (480kB)<br> 100% |################################| 483kB 762kB/s <br>Collecting cycler (from matplotlib)<br> Downloading cycler-0.10.0-py2.py3-none-any.whl<br>Collecting pyparsing!=2.0.4,>=1.5.6 (from matplotlib)<br> Downloading pyparsing-2.1.5-py2.py3-none-any.whl (42kB)<br> 100% |################################| 45kB 8.7MB/s <br>Requirement already up-to-date: six>=1.5 in ./yt-x86_64/lib/python2.7/site-packages/six-1.10.0-py2.7.egg (from python-dateutil->matplotlib)<br>Building wheels for collected packages: matplotlib, numpy<br> Running setup.py bdist_wheel for matplotlib<br> Stored in directory: /home/stonnes/.cache/pip/wheels/d8/38/3c/a388e11fd09f9b23f5e4cd74594197394d9fd65f91f64c4aa7<br> Running setup.py bdist_wheel for numpy<br> Stored in directory: /home/stonnes/.cache/pip/wheels/d9/cc/5c/f60303cc48ac18e6bd359aa88e4fa50e8bd88fc7e9f001cfd8<br>Successfully built matplotlib numpy<br>Installing collected packages: numpy, python-dateutil, pytz, cycler, pyparsing, matplotlib<br> Found existing installation: numpy 1.9.2<br> DEPRECATION: Uninstalling a distutils installed project (numpy) has been deprecated and will be removed in a future version. This is due to the fact that uninstalling a distutils project will only partially uninstall the project.<br> Uninstalling numpy-1.9.2:<br> Successfully uninstalled numpy-1.9.2<br> Found existing installation: python-dateutil 2.4.2<br> Uninstalling python-dateutil-2.4.2:<br> Successfully uninstalled python-dateutil-2.4.2<br> Found existing installation: pytz 2015.7<br> Uninstalling pytz-2015.7:<br> Successfully uninstalled pytz-2015.7<br> Found existing installation: pyparsing 2.0.7<br> Uninstalling pyparsing-2.0.7:<br> Successfully uninstalled pyparsing-2.0.7<br> Found existing installation: matplotlib 1.4.3<br> Uninstalling matplotlib-1.4.3:<br> Successfully uninstalled matplotlib-1.4.3<br>Successfully installed cycler matplotlib numpy pyparsing python-dateutil pytz<span><br>Traceback (most recent call last):<br></span> File "/home/stonnes/yt-x86_64/bin/pip", line 11, in <module><br> sys.exit(main())<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/__init__.py", line 217, in main<br> return command.main(cmd_args)<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/basecommand.py", line 248, in main<br> pip_version_check(session)<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/utils/outdated.py", line 102, in pip_version_check<br> installed_version = get_installed_version("pip")<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/utils/__init__.py", line 858, in get_installed_version<br> working_set = pkg_resources.WorkingSet()<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 629, in __init__<br> self.add_entry(entry)<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 685, in add_entry<br> for dist in find_distributions(entry, True):<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 2075, in find_eggs_in_zip<br> if metadata.has_metadata('PKG-INFO'):<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 1605, in has_metadata<br> return self.egg_info and self._has(self._fn(self.egg_info, name))<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 1963, in _has<br> return zip_path in self.zipinfo or zip_path in self._index()<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 1843, in zipinfo<br> return self._zip_manifests.load(self.loader.archive)<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pip/_vendor/pkg_resources/__init__.py", line 1783, in load<br> mtime = os.stat(path).st_mtime<br>OSError: [Errno 2] No such file or directory: '/home/stonnes/yt-x86_64/lib/python2.7/site-packages/pytz-2015.7-py2.7.egg'<br><br></div><div class="gmail_extra"><span><br clear="all"><div><div data-smartmail="gmail_signature"><div dir="ltr"><div><div><div><font face="garamond,serif">--<br>Dr. Stephanie Tonnesen<br></font></div><font face="garamond,serif">Alvin E. Nashman Postdoctoral Fellow<br></font></div><font face="garamond,serif">Carnegie Observatories, Pasadena, CA<br></font></div><font face="garamond,serif"><a href="mailto:stonnes@gmail.com" target="_blank">stonnes@gmail.com</a><br></font></div></div></div>
<br></span><div><div><div class="gmail_quote">On Fri, Jun 24, 2016 at 12:56 PM, Nathan Goldbaum <span dir="ltr"><<a href="mailto:nathan12343@gmail.com" target="_blank">nathan12343@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hi Stephanie,<div><br></div><div>The quick fix is to update your matplotlib installation:</div><div><br></div><div>$ pip install -U matplotlib</div><div><br></div><div>There's an open pull request that fixes your issue, it should be merged soon:</div><div><br></div><div><a href="https://bitbucket.org/yt_analysis/yt/pull-requests/2234/fix-compatibility-with-matplotlib-143-and/diff" target="_blank">https://bitbucket.org/yt_analysis/yt/pull-requests/2234/fix-compatibility-with-matplotlib-143-and/diff</a><br></div><div><br></div><div>-Nathan</div></div><div class="gmail_extra"><br><div class="gmail_quote"><div><div>On Fri, Jun 24, 2016 at 2:39 PM, Stephanie Tonnesen <span dir="ltr"><<a href="mailto:stonnes@gmail.com" target="_blank">stonnes@gmail.com</a>></span> wrote:<br></div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div><div dir="ltr"><div><div><div><div><div>Hi yt-users,<br><br></div>I just updated my yt dev and suddenly my plotting scripts don't work. When I actually try and save my plot, I am told that I don't have "classic" style available. I am not sure where this problem is coming from, does anyone have some advice for me?<br><br></div>The code commands:<br><br>ds = yt.load("/data001/stonnes/MWtype_BPtest/DD"+loop[i]+"/DDMWtestf"+loop[i])<br>ds.add_field(('gas','tracer'),function=tfrac)<br>logs = {('index','cylindrical_r'):False}<br>logs = {('gas','velocity_z'):False}<br>logs = {('gas','velocity_x'):False}<br>logs = {('gas','velocity_y'):False}<br>logs = {('gas','tracer'):False}<br><br>ds.index<br>ds.field_info['gas','velocity_z'].take_log = False<br>ds.field_info['gas','velocity_x'].take_log = False<br> <br>plot6p = yt.ProjectionPlot(ds,"z","density")<br>plot6p.save()<br> <br></div>The error message:<br><br>yt : [INFO ] 2016-06-24 12:25:04,736 Parameters: current_time = 0<br>yt : [INFO ] 2016-06-24 12:25:04,736 Parameters: domain_dimensions = [256 256 256]<br>yt : [INFO ] 2016-06-24 12:25:04,736 Parameters: domain_left_edge = [ 0. 0. 0.]<br>yt : [INFO ] 2016-06-24 12:25:04,737 Parameters: domain_right_edge = [ 1. 1. 1.]<br>yt : [INFO ] 2016-06-24 12:25:04,737 Parameters: cosmological_simulation = 0.0<br><br>Parsing Hierarchy : 0%| | 0/2503 [00:00<?, ?it/s]<br>Parsing Hierarchy : 100%|##########| 2503/2503 [00:00<00:00, 33786.39it/s]<br>yt : [INFO ] 2016-06-24 12:25:04,952 Gathering a field list (this may take a moment.)<br>yt : [INFO ] 2016-06-24 12:25:50,114 Projection completed<br>yt : [INFO ] 2016-06-24 12:25:50,328 xlim = 0.000000 1.000000<br>yt : [INFO ] 2016-06-24 12:25:50,328 ylim = 0.000000 1.000000<br>yt : [INFO ] 2016-06-24 12:25:50,329 xlim = 0.000000 1.000000<br>yt : [INFO ] 2016-06-24 12:25:50,329 ylim = 0.000000 1.000000<br>yt : [INFO ] 2016-06-24 12:25:50,336 Making a fixed resolution buffer of (('gas', 'density')) 800 by 800<br>yt : [INFO ] 2016-06-24 12:25:51,408 Saving plot DDMWtestf0000_Projection_z_density.png<br>Traceback (most recent call last):<br> File "yt_slicesonly_allouts.py", line 29, in <module><br> plot6p.save()<br> File "/home/stonnes/yt-x86_64/src/yt-hg/yt/visualization/plot_container.py", line 79, in newfunc<br> rv = f(*args, **kwargs)<br> File "/home/stonnes/yt-x86_64/src/yt-hg/yt/visualization/plot_container.py", line 575, in save<br> names.append(v.save(n, mpl_kwargs))<br> File "/home/stonnes/yt-x86_64/src/yt-hg/yt/visualization/base_plot_types.py", line 104, in save<br> with matplotlib_style_context():<br> File "/home/stonnes/yt-x86_64/lib/python2.7/contextlib.py", line 17, in __enter__<br> return self.gen.next()<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/matplotlib-1.4.3-py2.7-linux-x86_64.egg/matplotlib/style/core.py", line 86, in context<br> use(name)<br> File "/home/stonnes/yt-x86_64/lib/python2.7/site-packages/matplotlib-1.4.3-py2.7-linux-x86_64.egg/matplotlib/style/core.py", line 66, in use<br> raise ValueError(msg % style)<br>ValueError: 'classic' not found in the style library and input is not a valid URL or path. See `style.available` for list of available styles.<br><br></div>Thanks!<br></div>Stephanie<br clear="all"><div><div><div><div><div><div><div><div data-smartmail="gmail_signature"><div dir="ltr"><div><div><div><font face="garamond,serif">--<br>Dr. Stephanie Tonnesen<br></font></div><font face="garamond,serif">Alvin E. Nashman Postdoctoral Fellow<br></font></div><font face="garamond,serif">Carnegie Observatories, Pasadena, CA<br></font></div><font face="garamond,serif"><a href="mailto:stonnes@gmail.com" target="_blank">stonnes@gmail.com</a><br></font></div></div></div>
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