[yt-users] yt error on kraken

[Britton Smith]

Hi Yuan,

Sorry for the delay in responding to your issue!  It seems that fix that
was put in place (by me) to get the memory usage isn't working right on
Kraken.  I am also seeing this behavior.  I am looking into this right
now.  For the time being, you should be ok loading an older yt module, like
yt/2.2.

Britton

On Sat, Feb 25, 2012 at 6:21 PM, Yuan Li <yuan at astro.columbia.edu> wrote:

> Hi all,
>
> I am trying to make a simple density projection of my data using yt on
> kraken. I have done this successfully many times before both on kraken
> and other machines, but lately I have been getting errors on kraken.
>
> I tried to run it interactively and it worked, but when I submit it as
> a job, I get this error:
>
> P000 yt : [INFO     ] 2012-02-24 03:40:43,722 Created plot collection
> with default plot-center = [0.50027465
> 8203125, 0.500335693359375, 0.499969482421875]
> Traceback (most recent call last):
>  File "/var/spool/alps/8952326/try1.py", line 8, in <module>
>    profile("Feb2012/cluster_64/",imax=20)
>  File "/lustre/scratch/yuan/enzo_yt/cluster256_nog/yuan.py", line 23,
> in profile
>  File "/lustre/scratch/yuan/enzo_yt/cluster256_nog/yuan.py", line 23,
> in profile
>                pc.add_projection("Density", 0)
>
>  File
> "/lustre/scratch/proj/sw/yt/dev/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/visua
> lization/plot_collection.py", line 758, in add_projection
>
> P000 yt : [INFO     ] 2012-02-24 03:40:43,919 Starting 'Projecting
> level  0 /  8 '
>        **field_parameters)
> **field_parameters)
>              File
>
> "/lustre/scratch/proj/sw/yt/dev/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.
> egg/yt/data_objects/data_containers.py", line 1648, in __init__
>
>  File
> "/lustre/scratch/proj/sw/yt/dev/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/data_
> objects/data_containers.py", line 309, in _refresh_data
>
> .......
>
>
>   File
> "/lustre/scratch/proj/sw/yt/dev/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/funcs
> .py", line 104, in get_memory_usage
>    return float(os.popen('ps -o rss= -p %d' % pid).read()) / 1024
> ValueError: could not convert string to float: PID  Uid     VmSize Stat
> Command
>    1 root        584 S   init
>    2 root            SW  [migration/0]
>    3 root            SWN [ksoftirqd/0]
>    4 root            SW  [migration/1]
>    5 roo
>
>
>
> It seems that something went wrong at "get_memory_usage", but I had
> never had this error before and an interactive job does not get this
> error either.
>
> Sorry the error message is quite messy...
>
> Yuan
> _______________________________________________
> yt-users mailing list
> yt-users at lists.spacepope.org
> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20120228/08426228/attachment.html>