Re: [yt-users] yt update and error

Thanks Nathan, installed it. On Fri, Aug 26, 2016 at 12:50 AM, Nathan Goldbaum wrote:

On Thu, Aug 25, 2016 at 11:32 PM, Nathan Goldbaum wrote:

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It seems you have an old version of setuptools, do "pip install -U setuptools" and "pip install -U pip", then try "python setup.py develop" again. You might also need to update cython.

If this is getting too complicated, you can always re-run the latest version of the install script from https://bitbucket.org/yt_analy sis/yt/src/yt/doc/install_script.sh in e.g. /work/03858/thaque56/sw/yt-3.3 and use that yt installation instead.

Of course you probably want the "raw" download link: https://bitbucket.org/yt_analysis/yt/raw/yt/doc/install_script.sh

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On Thu, Aug 25, 2016 at 11:25 PM, tazkera haque wrote:

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and I did

$ cd /work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/ $ hg --config extensions.purge= purge --all yt $ hg pull https://bitbucket.org/yt_analysis/yt $ hg update stable $ python setup.py develop

On Fri, Aug 26, 2016 at 12:25 AM, tazkera haque wrote:

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HI Nathan ,

Thanks for your help but now it gives me a whole bunch of errors:

(yt-x86_64)login2.stampede(6)$ python setup.py develop Unable to find pgen, not compiling formal grammar. Traceback (most recent call last): File "setup.py", line 391, in <module> ext_modules=cython_extensions + extensions, File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/lib/python2.7/distutils/core.py", line 111, in setup _setup_distribution = dist = klass(attrs) File "build/bdist.linux-x86_64/egg/setuptools/dist.py", line 268, in __init__ File "build/bdist.linux-x86_64/egg/setuptools/dist.py", line 313, in fetch_build_eggs File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 836, in resolve

File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 1081, in best_match

File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 1093, in obtain

File "build/bdist.linux-x86_64/egg/setuptools/dist.py", line 380, in fetch_build_egg File "build/bdist.linux-x86_64/egg/setuptools/command/easy_install.py", line 629, in easy_install File "build/bdist.linux-x86_64/egg/setuptools/command/easy_install.py", line 659, in install_item File "build/bdist.linux-x86_64/egg/setuptools/command/easy_install.py", line 842, in install_eggs File "build/bdist.linux-x86_64/egg/setuptools/command/easy_install.py", line 1070, in build_and_install File "build/bdist.linux-x86_64/egg/setuptools/command/easy_install.py", line 1056, in run_setup File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 240, in run_setup File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/lib/python2.7/contextlib.py", line 35, in __exit__ self.gen.throw(type, value, traceback) File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 193, in setup_context File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/lib/python2.7/contextlib.py", line 35, in __exit__ self.gen.throw(type, value, traceback) File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 152, in save_modules File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 126, in __exit__ File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump File "build/bdist.linux-x86_64/egg/setuptools/sandbox.py", line 110, in dump MemoryError

Tazkera

On Thu, Aug 25, 2016 at 11:51 PM, Nathan Goldbaum < nathan12343@gmail.com> wrote:

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On Thu, Aug 25, 2016 at 9:49 PM, tazkera haque wrote:

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Hi people,

I would like to upgrade yt to the latest version, I tried typing *yt update *in a folder on cluster /work/03858/thaque56/sw/yt-3.1 and it gives me following error:

Traceback (most recent call last): File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/bin/yt", line 9, in <module> load_entry_point('yt==3.2.3', 'console_scripts', 'yt')() File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 558, in load_entry_point

File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 2682, in load_entry_point

File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 2355, in load

File "build/bdist.linux-x86_64/egg/pkg_resources/__init__.py", line 2361, in resolve

File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/yt/__init__.py", line 123, in <module> from yt.data_objects.api import \ File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/yt/data_objects/api.py", line 16, in <module> from .grid_patch import \ File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.py", line 19, in <module> from yt.data_objects.data_containers import \ File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.py", line 55, in <module> from yt.utilities.parallel_tools.parallel_analysis_interface import \ File "/work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/yt/utili ties/parallel_tools/parallel_analysis_interface.py", line 33, in <module> from yt.utilities.lib.quad_tree import \ ImportError: No module named quad_tree

$ cd /work/03858/thaque56/sw/yt-3.1/yt-x86_64/src/yt-hg/ $ hg --config extensions.purge= purge --all yt $ hg pull https://bitbucket.org/yt_analysis/yt $ hg update yt $ python setup.py develop

This will put you on the latest in-development version of yt. If you'd instead like to be on the last stable release, do "hg update stable" instead of "hg update yt".

"yt update" is supposed to automate this, but something seems to have gone wrong in your case. I'm not sure why.

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and now I cannot excecute any of my python scripts there, please help me upgrade and fix the problem. thanks

Tazkera

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