[yt-users] amr_utils

Matthew Turk matthewturk at gmail.com
Sat Feb 6 09:56:44 PST 2010


No, this looks more like there are issues with your compiler, and
components of yt being compiled with Intel.  Compiling yt with
anything other than GNU is tricky.

You can try flushing it out with this:

find /autohome/u118/agarwa23/enzo1.5/src/yt/ -name "*.so" |xargs rm -v
find /autohome/u118/agarwa23/enzo1.5/src/yt/ -name "*.o" |xargs rm -v

and then re-build.  Make sure that if you are on a machine with
modules you have the GNU modules loaded, not the Intel modules before
this.

-Matt

On Sat, Feb 6, 2010 at 9:51 AM, Agarwal, Shankar <sagarwal at ku.edu> wrote:
> Ok. But now I get this...
>
> Traceback (most recent call last):
>  File "visual.py", line 6, in <module>
>    from yt.mods import *
>  File "/autohome/u118/agarwa23/enzo1.5/src/yt/yt/mods.py", line 32, in <module>
>    import yt.lagos as lagos
>  File "/autohome/u118/agarwa23/enzo1.5/src/yt/yt/lagos/__init__.py", line 66, in <module>
>    import PointCombine
> ImportError: /autohome/u118/agarwa23/enzo1.5/src/yt/yt/lagos/PointCombine.so: undefined symbol: _intel_fast_memset
>
>
> Do you think my older version is somehow clashing with the new one?
>
> Shankar
>
>
>
> -----Original Message-----
> From: yt-users-bounces at lists.spacepope.org on behalf of Matthew Turk
> Sent: Sat 2/6/2010 11:46 AM
> To: Discussion of the yt analysis package
> Subject: Re: [yt-users] amr_utils
>
> Hi Shankar,
>
> Looks like you're inside an enzo svn checkout.  To update your entire
> enzo+yt source tree (which, because yt is included via svn:externals)
> you should do:
>
> /autohome/u118/agarwa23/enzo1.5/
> svn up
> cd src/yt
> python2.6 setup.py build_ext -i
>
> This will (in order) put you in the root enzo directory, update your
> subversion checkout (which may update your Enzo tree to reflect recent
> bug fixes and so on) of both Enzo+yt, and then make sure that all of
> the extensions -- of which amr_utils is one! -- are built.  The last
> step is the most important, and you should probably run this every
> time you svn up yt.  I'll make a note of this in the documentation.
>
> -Matt
>
> On Sat, Feb 6, 2010 at 9:28 AM, Agarwal, Shankar <sagarwal at ku.edu> wrote:
>> Hi,
>>
>> I just "svn up" my working yt copy (I did not have the volume_rendering earlier). Do I have to "make clean; make" again.
>>
>> I just tried to run the script...
>>
>> http://casa.colorado.edu/~skillman/research_and_codes/assets/rot_evolve.txt
>>
>> on my dataset. But I am getting this error...
>>
>> Traceback (most recent call last):
>>  File "visual.py", line 6, in <module>
>>    from yt.mods import *
>>  File "/autohome/u118/agarwa23/enzo1.5/src/yt/yt/mods.py", line 32, in <module>
>>    import yt.lagos as lagos
>>  File "/autohome/u118/agarwa23/enzo1.5/src/yt/yt/lagos/__init__.py", line 58, in <module>
>>    import yt.amr_utils as amr_utils
>> ImportError: No module named amr_utils
>> _______________________________________________
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>> yt-users at lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>
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