[mesa-users] Installing MESA on a supercomputer (Richard Townsend)

Richard Townsend townsend at astro.wisc.edu
Thu Jan 5 04:41:40 EST 2012


I'm not even sure what is to be gained from running MESA on a supercomputer. Parallelism in MESA is only via OpenMP - there is no MPIA usage. As such, MESA can take advantage of shared memory architectures, but not clustered architectures.

Cheers,

Rich

On Jan 5, 2012, at 7:31 AM, Francis Timmes <fxt44 at mac.com> wrote:

> hi ben, rich, kevin (and the mesa community),
> 
> i had no luck compiling mesa under pgi on the nersc
> machines hopper and franklin this past summer. the issue 
> boiled down to certain pointer structures used in mesa
> not being supported in that version of the pgi compiler.
> 
> i would be interested in hearing from anyone about 
> successes or failures on running mesa on any supercomputer
> or largish parallel cluster.
> 
> fxt
> 
> 
> 
> 
> On Jan 4, 2012, at 3:56 PM, Ben Brown wrote:
> 
>> Kevin,
>>    To follow up on Rich's note: you are almost certainly not going to be 
>> able to use the MESA SDK on a supercomputer.  From my experiences with 
>> those systems (using a very different code), they tend to require highly 
>> specialized libraries and compilers.  A general purpose tool like the SDK 
>> won't work, because often the libraries being referenced need to be 
>> compiled against very specific hardware.
>> 
>> Put differently, the login nodes and the compute nodes tend to run very 
>> different operating systems and codes targeting the compute nodes need to 
>> be compiled using the specific compilers supported by UCSD for Triton. 
>> Which means you'll need to come up with a specialized solution for this 
>> system.  I don't have access to Triton myself, so I can't be much more 
>> specific than that.  Looking over the Triton webpages it looks like both 
>> PGI and Intel compilers are available on the system:
>> 
>>     http://tritonresource.sdsc.edu/compile_jobs.php
>> 
>> If you run into problems, you might try contacting Theodore Sande 
>> (formerly at MIT) for help in getting a version of MESA to compile, as he 
>> has had the code running on large-scale systems in the past.
>> 
>> Otherwise I could take a look at Ranger or Kraken (supercomputers at TACC 
>> and NICS; both have Intel and PGI compilers) later this week or next week.
>> They won't be a perfect match, but they may get you started.
>> --Ben
>> 
>> 
>>> 
>>> Hi Kevin --
>>> 
>>> This is a common problem with systems using 'older' (pre-2.11) versions of the GNU C library (glibc), which is a standard (and significant) part of all Linux distributions. At the moment, I have no plans to support pre-2.11 glibc versions, since 2.11 has been out for over two years. So, the only workaround would be to upgrade to 2.11 or later.
>>> 
>>> cheers,
>>> 
>>> Rich
>>> 
>>> On Jan 4, 2012, at 7:23 PM, Kevin Moore wrote:
>>> 
>>>> Hi all,
>>>> 
>>>> I'm trying to install MESA on the Triton computing cluster at UCSD and am getting some weird errors. I know next to nothing about this so am just following the instructions on Rich's website for using the MESA SDK (which has worked fine for my macbook many times). uname -m returns "x86_64" so I'm using the 64-bit linux version of the SDK. All the setup steps seem to work fine (no errors anyway), but I run into problems during the ./install step.
>>>> 
>>>> The first error I encounter is:
>>>> gfortran: /lib64/libc.so.6: version `GLIBC_2.11' not found (required by gfortran)
>>>> make: *** [const_def.o] Error 1
>>>> 
>>>> Perhaps tellingly, there is not a file named libc.so.6 in my mesa/utils/mesasdk/lib64.
>>>> 
>>>> In addition, now whenever I try and use the man command I get the error:
>>>> /usr/bin/gtbl: error while loading shared libraries: /home/kmoore-ucsb/mesa_3794/utils/mesasdk/lib64/libstdc++.so.6: ELF file OS ABI invalid
>>>> 
>>>> Any ideas what's going on from someone who may have done this before?
>>>> 
>>>> Thanks,
>>>> Kevin
>>>> 
>>>> 
>>>> 
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