Hi Matt, I was making thin projections. Each output dataset (DD****) is about 14G. What are "multiple root level tiles"? I have 256^3 root grids... I just submitted another job asking for more nodes. I will let you know how that goes (in two days). Thanks! Yuan On Sat, Jul 28, 2012 at 7:24 PM, Matthew Turk <matthewturk@gmail.com> wrote:
Hi Yuan,
On Sat, Jul 28, 2012 at 6:41 PM, Yuan Li <bear0980@gmail.com> wrote:
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 :).
What operation are you doing, and how big is your dataset? And, does your data have multiple root level tiles?
-Matt
How many nodes do you use for each job, Britton?
Thanks! Yuan
On Thu, Jul 26, 2012 at 6:39 PM, Britton Smith <brittonsmith@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
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@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@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
using 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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