Julia

Description

From the Julia website: Julia is a high-level, high-performance dynamic programming language for technical computing, with syntax that is familiar to users of other technical computing environments. It provides a sophisticated compiler, distributed parallel execution, numerical accuracy, and an extensive mathematical function library. The library, largely written in Julia itself, also integrates mature, best-of-breed C and Fortran libraries for linear algebra, random number generation, signal processing, and string processing. In addition, the Julia developer community is contributing a number of external packages through Julia’s built-in package manager at a rapid pace.

Version

0.5.2

Authorized Users

CIRCE account holders
RRA account holders
SC account holders

Platforms

CIRCE cluster
RRA cluster
SC cluster

Modules

Julia requires the following module file to run:

apps/julia/0.5.2

See Modules for more information.

Using Julia on CIRCE/SC

Once you add the module above, you can either invoke the Julia interpreter interactively by typing:

[user@itn0 ~]$ julia

or, you can specify a Julia source code file, with any applicable arguments:

[user@itn0 ~]$ julia helloworld.jl arg1 arg2…

Jobs Longer than 20 Minutes in Length

To run Julia jobs on CIRCE/SC, users will need to submit their jobs to the scheduling environment if their jobs take more than 20 minutes to run on a standard PC.

If, for example, you have a Julia script file named julia-test.jl with all your functions defined in it, you would set up a submit script to use like this:

The script below (for testing, name it “julia-test.sh”) can be copied into your job directory (the folder with your input files) and modified so that you can submit batch processes to the queue.

#!/bin/bash 
#SBATCH --job-name=julia-test 
#SBATCH --time=01:00:00 
#SBATCH --nodes=2 
#SBATCH --ntasks=4 
#SBATCH --mem-per-cpu=2048 
#SBATCH --output=julia-test.%j.txt 


module purge 
module initadd apps/julia/0.5.2 

export SLURM_NODEFILE='generate_pbs_nodefile' 
cp $SLURM_NODEFILE ./nodefile 

mpirun julia --machinefile ./nodefile julia-test.jl 

module initrm apps/julia/0.5.2

Next, verify that you are in your job’s directory, and run the sbatch command to submit the job:

[user@itn0 ~]$ cd my/jobdir
[user@itn0 jobdir]$ sbatch ./julia-test.sh

This will submit a 2 node, 8 total cpu core job with 2 GB of memory per core and a 1 hour job time.

Documentation

Home Page, User Guides, and Manuals

Julia Home Page:
- http://julialang.org/
Julia Manual:
- http://julia.readthedocs.org/en/latest/manual

Reporting Bugs

Report bugs with Julia to the IT Help Desk: rc-help@usf.edu

Julia

Contents