[yt-users] ramses_reader broken on Lens?

[gso at physics.ucsd.edu]

Yeah after updating, now matplotlib is complaining.
I'll see if they can install/find the missing software, I don't think it
is feasible to rewrite all my scripts just for this one machine.

From
G.S.

> Actually, it's a different error.  Now you're getting it from the ART
> import.  I have made the same modification there in 749ce1a696de.
>
> The error is still with your environment; it's telling you right in
> the error message that it's unable to find GLIBCXX.  This is the C++
> standard library.  I would bet that you will run into more problems
> down the line -- probably with matplotlib.  However, you should be
> able to make image plots and serialize data with cPickle to avoid
> having to use matplotlib.
>
> -Matt
>
> On Wed, Jun 8, 2011 at 10:25 AM,  <gso at physics.ucsd.edu> wrote:
>> The modules I have loaded are:
>> -bash-3.2$ module list
>> Currently Loaded Modulefiles:
>>  1) moab                  2) python/2.7            3) PE-gnu/4.4.4
>>  4) ompi/1.4.2-gnu4.4.4   5) gcc/4.4.4             6) DefApps
>>
>> my environment variables are:
>> export PATH=.:/ccs/home/geoso/LensYT/bin:$PATH
>> export
>> PYTHONPATH=/ccs/home/geoso/LensYT/lib:/ccs/home/geoso/LensYT/lib/python
>> export LD_LIBRARY_PATH=/ccs/home/geoso/LensYT/lib:$LD_LIBRARY_PATH
>> export MPLCONFIGDIR=/tmp/work/geoso
>>
>> and the python in this terminal is pointed to
>> -bash-3.2$ which python
>> ~/LensYT/bin/python
>>
>> did a yt instinfo -u
>>
>> The current version of the code is:
>>
>> ---
>> 716698ff4046 (yt) tip
>> ---
>>
>> but the same error persists.
>>
>> From
>> G.S.
>>
>>
>>> Hi Geoffrey,
>>>
>>> If I understand your email correctly, you are loading the GNU
>>> environment correctly, but it's not entirely clear to me from reading
>>> it.  I've pushed a fix that will allow ramses_reader to fail silently
>>> on import.  This is in changeset 716698ff4046.
>>>
>>> You may get similar errors with Matplotlib.
>>>
>>> Loading PE-pgi will only complicate matters.
>>>
>>> -Matt
>>>
>>> On Wed, Jun 8, 2011 at 10:01 AM,  <gso at physics.ucsd.edu> wrote:
>>>> I thought I might have used PE-pgi, so I went and reinstalled YT with
>>>> the
>>>> PE-gnu loaded, and installed mpi4py afterwards with the same window
>>>> specifying --home=/ccs/home/geoso/LensYT when I did the python
>>>> setup.py
>>>> install.  And I'm still getting the same error.  I think I recall if I
>>>> had
>>>> PE-pgi loaded, mpi4py wouldn't even build.
>>>>
>>>> I've even tried loading pgi to run the script and still the same
>>>> error.
>>>>
>>>> From
>>>> G.S.
>>>>
>>>>> Hi Geoffrey,
>>>>>
>>>>> This is usually caused by having the wrong programming environment
>>>>> loaded when you run or build yt.  Did you have GNU loaded when you
>>>>> built, and do you have it loaded now?
>>>>>
>>>>> The reason it shows up with Ramses is that Ramses uses C++.
>>>>>
>>>>> -Matt
>>>>>
>>>>> On Wed, Jun 8, 2011 at 9:01 AM,  <gso at physics.ucsd.edu> wrote:
>>>>>> I was trying to test Lens with a fresh install of the devel YT and
>>>>>> some
>>>>>> simple projections and I got the following:
>>>>>>
>>>>>>
>>>>>> Traceback (most recent call last):
>>>>>>  File "moviesDens.py", line 3, in <module>
>>>>>>    from yt.mods import *
>>>>>>  File "/autofs/na1_home/geoso/LensYT/src/yt-hg/yt/mods.py", line 71,
>>>>>> in
>>>>>> <module>
>>>>>>    from yt.frontends.ramses.api import \
>>>>>>  File
>>>>>> "/autofs/na1_home/geoso/LensYT/src/yt-hg/yt/frontends/ramses/api.py",
>>>>>> line 31, in <module>
>>>>>>    from .data_structures import \
>>>>>>  File
>>>>>> "/autofs/na1_home/geoso/LensYT/src/yt-hg/yt/frontends/ramses/data_structures.py",
>>>>>> line 37, in <module>
>>>>>>    import _ramses_reader
>>>>>> ImportError: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.11' not
>>>>>> found
>>>>>> (required by
>>>>>> /autofs/na1_home/geoso/LensYT/src/yt-hg/yt/frontends/ramses/_ramses_reader.so)
>>>>>>
>>>>>> Is this missing GLIBCXX_3.4.11 YT's problem or should I email the
>>>>>> NCCS
>>>>>> sys
>>>>>> admins?
>>>>>>
>>>>>> From
>>>>>> G.S.
>>>>>>
>>>>>> _______________________________________________
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