[yt-users] Having trouble running yt on kraken

[Yuan Li]

Hi Britton,

Thanks for your suggestion! Now the problem has been semi-solved.

I have checked my script and I have this "module load yt/dev/", so I guess
I am using yt/dev, which is what I use on other machines.

There is indeed a problem with "slice". I had all my functions defined
inside one file called profile.py (my bad: I started with profiles and kept
adding things without changing the name of it). After I changed that file
to "yuan.py", the error I got was:
......
Traceback (most recent call last):
  File "/var/spool/alps/2362242/try1.py", line 3, in <module>
    import yuan as yuan
ImportError: No module named yuan
......

So Kraken did not see my file. It did not complain before because there was
a built-in function in python called profile.

Now after I added this to my script:
import sys
sys.path.append('/lustre/scratch/yuan/Thermal09/')

Kraken could finally import my functions!


The reason why I said that it was only semi-solved is because now I am
getting "MemoryError". I will try to use more nodes, but it may never work
:).

How many nodes do you use for each job, Britton?

Thanks!
Yuan

On Thu, Jul 26, 2012 at 6:39 PM, Britton Smith <brittonsmith at gmail.com>wrote:

> Hi Yuan,
>
> This could be a result of using different version of yt on the two
> different platforms.  Can you check and see which version of yt you're
> using on kraken?  I believe there are modules for versions 2.2, 2.3, and
> the development branch on kraken.
>
> Also, the variable "slice" is already used in python for something else.
> If slice is apart of your script, you may want to rename that to something
> else.
>
> If your script only works on the most recent version of yt, you'll
> probably want to try to use the yt/dev module on Kraken.
>
> Britton
>
> On Wed, Jul 25, 2012 at 5:18 PM, Yuan Li <bear0980 at gmail.com> wrote:
>
>> Hi all,
>>
>> I have been having trouble running yt on kraken. I am using the same
>> script that I use on trestles (where it sort of works). The issue I have on
>> kraken is that when I submit a non-interactive job, I get this error:
>> + aprun -n 12 ./try1.py --parallel
>> Traceback (most recent call last):
>>   File "/var/spool/alps/2310447/try1.py", line 3, in <module>
>>     slice(imin=12, imax=47, width=20)
>> TypeError: slice() does not take keyword arguments
>>
>>
>> If I run an interactive job (./try1.py --parallel), I get this error:
>> yuan at krakenpf2:~/scratch/Thermal09> Assertion failed in file
>> /ptmp/ulib/mpt/nightly/5.2/051011/mpich2/src/mpid/cray/src/adi/mpid_init.c
>> at line 115: 0
>> aborting job:
>> (null)
>>
>>
>> I can run a non-parallel interactive job (./try1.py) without any problem.
>>
>> My script looks like this:
>> #!/lustre/scratch/proj/sw/yt/dev/bin/python
>> from profile import *
>> slice(imin=41, imax=47, width=20)
>>
>>
>> Thanks!
>> Yuan
>>
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>>
>
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