[yt-users] yt update and error

Nathan Goldbaum nathan12343 at gmail.com
Thu Aug 25 21:50:08 PDT 2016 

On Thu, Aug 25, 2016 at 11:32 PM, Nathan Goldbaum <nathan12343 at gmail.com>
wrote:

> 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_
> analysis/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


> On Thu, Aug 25, 2016 at 11:25 PM, tazkera haque <h.tazkera at gmail.com>
> wrote:
>
>> 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 <h.tazkera at gmail.com>
>> wrote:
>>
>>> 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 at gmail.com
>>> > wrote:
>>>
>>>>
>>>>
>>>> On Thu, Aug 25, 2016 at 9:49 PM, tazkera haque <h.tazkera at 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/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.
>>>>
>>>>
>>>>> and now I cannot excecute any of my python scripts there, please help
>>>>> me upgrade and fix the problem. thanks
>>>>>
>>>>> Tazkera
>>>>>
>>>>> _______________________________________________
>>>>> yt-users mailing list
>>>>> yt-users at lists.spacepope.org
>>>>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>>>>
>>>>>
>>>>
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>>>>
>>>>
>>>
>>
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>>
>
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