SC13 Experiences - Good and Bad

RE: how to run MPI + OpenMP batch

2014-01-31T03:02:39Z

Lester,

That's great! Glad you're taken care of. And...thank you for providing information and reference files for others who might have the same question! We're attempting to breathe some life back into the forum, and contributions are very important

RE: how to run MPI + OpenMP batch

2014-01-31T02:08:43Z

Lester,

I expect that Trestles will be similar to Gordon, but not certain on that:

https://portal.xsede.org/web/xup/sdsc-gordon#running

Basically:

# 2 MPI processes x 16 threads/node = 2 nodes x 16 cores/node = 32
#PBS -l nodes=2:ppn=1:native
cd /oasis/scratch/$USER/temp_project
mpirun_rsh -np 2 -hostfile $PBS_NODEFILE OMP_NUMTHREADS=16 executable [command line args]

# 8 MPI processes x 4 threads/node = 2 nodes x 16 cores/node = 32
#PBS -l nodes=2:ppn=4:native
cd /oasis/scratch/$USER/temp_project
mpirun_rsh -np 8 -hostfile $PBS_NODEFILE OMP_NUMTHREADS=4 executable [command line args]

RE: Submitting request using portal and unable to save progress

2014-01-21T18:17:53Z

Lane,

Was this resolved, or do you require further assistance?

RE: Quantum Espresso batch file.

2013-12-19T22:37:57Z

Hey Junyue,

First, I'd try and simplify things a bit. It seems like you're trying to do a lot of different things in your PBS script. I typically do place all of my data in /scratch rather than /home to run simulations. Just simplifies moving things around with the script(s).

So, try and re-write a much simpler PBS script to merely run the job, then add to it as you get more comfortable with the machine environment. Look at examples in the Gordon User Guide: https://portal.xsede.org/web/xup/sdsc-gordon

The error about not finding the .in file can likely be remedied by specifying the full path to the file rather than just the name itself. The problem with "==" I am not sure....maybe something that PBS does not support? Just a guess, but again...simplifying the script to do the bare minimum will help out in the beginning.

SC13 Experiences - Good and Bad

2013-11-24T18:05:26Z

The show itself? GOOD!
Countless friendly faces...a good many I had last seen at XSEDE13 in San Diego, but many more not since SC12! The floor did appear to be less trafficked than in previous years, though with every convention hall, the perception varies. The DOE labs were "sharing" a centralized space which cut down a lot on the big booths to visit. NASA was carrying about half the staff as normal, but had some nice presentations. As we had a shared booth this year (GPN), I at least had an aggregation point for rest breaks and storing my stuff. We had a very productive XSEDE Campus Champions meeting with around 60 CC's present as well as some of our XSEDE staff friends.

The travel aspect? BAD!
Huge delay out of Denver Thursday due to the snow fall. Then, heavy storms in Dallas caused an additional delay as no traffic was being allowed in or out of DFW. Missed last flight to XNA that night, slept in a chair at DFW terminal. My 8:00AM flight went though...so a scant 18 hours after I began my attempt to get home...SUCCESS!!!

So....any other opinions of SC this year? Wild stories? Firsts? Share 'em! The group would love to hear about it!