[yt-users] Problems using Rockstar in yt

[David Sullivan]

Hi all,

I also get the same error as Cameron when trying to run rockstar with mpi:

http://paste.yt-project.org/show/5019/

I’m using a ramses dataset (not sure if this is supported, but couldn’t see any clear evidence that it isn’t) and the following script:

mpirun -np 4 --mca btl ^openib python run_rockstar.py --parallel
http://paste.yt-project.org/show/5020/

I followed the same install instructions as Cameron, but I’m using a Linux cluster running CentOS. Appreciate any help!

Cheers,
David

On 12 Aug 2014, at 10:04, yt-users-request at lists.spacepope.org wrote:

> Message: 3
> Date: Tue, 12 Aug 2014 02:04:10 -0700
> From: Sam Skillman <samskillman at gmail.com>
> To: Discussion of the yt analysis package
> 	<yt-users at lists.spacepope.org>
> Subject: Re: [yt-users] Problems using Rockstar in yt
> Message-ID:
> 	<CAB4=1s1oHK0uPFo88rkSaEa-W6EASMLoyOiEFeniV-xSm6SPaQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
> 
> Hi Cameron,
> 
> Are you running in MPI?  You need to run with at least 3 MPI tasks for
> Rockstar to work properly.
> 
> Sam
> 
> 
> On Mon, Aug 11, 2014 at 6:41 PM, Cameron Hummels <chummels at gmail.com> wrote:
> 
>> Hello,
>> 
>> I'm trying to use Rockstar with the new HaloCatalog functionality in yt
>> 3.0, but I'm encountering some problems.  For reference, this is an OS X
>> box with the "yt" branch.  I've tested it on two OS X systems to the same
>> result.
>> 
>> I modified my install_script.py to have it install Rockstar as described
>> here:
>> 
>> 
>> http://yt-project.org/docs/dev/analyzing/analysis_modules/halo_finders.html#rockstar-installation
>> 
>> Then, after rerunning my install script for the `yt` branch (ie yt-3.1
>> dev) I tried to run the script provided here in order to generate a halo
>> catalog using HOP:
>> 
>> 
>> http://yt-project.org/docs/dev/analyzing/analysis_modules/halo_transition.html#getting-halo-information
>> 
>> It can create the catalog fine with finder_method='hop', but when I change
>> it to finder_method='rockstar', I get failures.  This is the traceback:
>> 
>> http://paste.yt-project.org/show/TE2DW8gc50urchv4JnUk
>> 
>> In the traceback, it claims that it cannot access librockstar.so, but this
>> library exists in the yt-x86_64/lib directory, which is explicitly in from
>> my $LD_LIBRARY_PATH.  I can seemingly get it to work, if I add that path to
>> my $DYLD_LIBRARY_PATH environment variable, but then a bunch of other
>> things break (like vi).  Not sure what to do here.
>> 
>> But assuming there is no vi problem here, even then, when I run the script
>> above, I get failures.  Here is the traceback:
>> 
>> http://paste.yt-project.org/show/rCOT1eVT1szR1T6DEUDb
>> 
>> I'm not sure what to do here.  I've also tried running rockstar external
>> to yt on an enzo dataset, but it doesn't appear that the version we install
>> as part of yt allows it to work on HDF5 datasets.
>> 
>> Has anyone run into any of these problems before?  I'm at a bit of a loss
>> as to how to proceed on any of these fronts.
>> 
>> Cameron
>> 
>> 
>> --
>> Cameron Hummels
>> Postdoctoral Researcher
>> Steward Observatory
>> University of Arizona
>> http://chummels.org
>> 
>> _______________________________________________
>> yt-users mailing list
>> yt-users at lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>> 

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