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:

On Thu, Aug 25, 2016 at 9:49 PM, tazkera haque <h.tazkera@gmail.com> wrote:

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/utilities/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.

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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