wq
Table of Content
About
WQ (WorkQueuing) provides a dispatcher-worker service to allow tasks to be distributed across multiple nodes under PBS control. The tasks may be serial, or small parallel OpenMP and MPI tasks (MPI tasks may only use cores on a single node under WQ). The user customizes a PBS template file to fit their needs, and provides a task script or program to be control. The template, example task script, and user documentation are pointed to by environment variables (WQ_PBS_TEMPLATE, WQ_EXAMPLE_TASK, and WQ_DOC) defined by the module or softenv key for WQ.
Versions and Availability
Module Names for wq on smic
| Machine | Version | Module Name |
|---|---|---|
| smic | 264 | wq/264 |
| smic | 272 | wq/272 |
▶ Module FAQ?
The information here is applicable to LSU HPC and LONI systems.
Shells
A user may choose between using /bin/bash and /bin/tcsh. Details about each shell follows.
/bin/bash
System resource file: /etc/profile
When one access the shell, the following user files are read in if they exist (in order):
- ~/.bash_profile (anything sent to STDOUT or STDERR will cause things like rsync to break)
- ~/.bashrc (interactive login only)
- ~/.profile
When a user logs out of an interactive session, the file ~/.bash_logout is executed if it exists.
The default value of the environmental variable, PATH, is set automatically using SoftEnv. See below for more information.
/bin/tcsh
The file ~/.cshrc is used to customize the user's environment if his login shell is /bin/tcsh.
Modules
Modules is a utility which helps users manage the complex business of setting up their shell environment in the face of potentially conflicting application versions and libraries.
Default Setup
When a user logs in, the system looks for a file named .modules in their home directory. This file contains module commands to set up the initial shell environment.
Viewing Available Modules
The command
$ module avail
displays a list of all the modules available. The list will look something like:
--- some stuff deleted --- velvet/1.2.10/INTEL-14.0.2 vmatch/2.2.2 ---------------- /usr/local/packages/Modules/modulefiles/admin ----------------- EasyBuild/1.11.1 GCC/4.9.0 INTEL-140-MPICH/3.1.1 EasyBuild/1.13.0 INTEL/14.0.2 INTEL-140-MVAPICH2/2.0 --- some stuff deleted ---
The module names take the form appname/version/compiler, providing the application name, the version, and information about how it was compiled (if needed).
Managing Modules
Besides avail, there are other basic module commands to use for manipulating the environment. These include:
add/load mod1 mod2 ... modn . . . Add modules rm/unload mod1 mod2 ... modn . . Remove modules switch/swap mod . . . . . . . . . Switch or swap one module for another display/show . . . . . . . . . . List modules loaded in the environment avail . . . . . . . . . . . . . . List available module names whatis mod1 mod2 ... modn . . . . Describe listed modules
The -h option to module will list all available commands.
Module is currently available only on SuperMIC.
Usage
- Create a file with each line defining a file name, command line, or whatever the task script/program requires.
- Create a task script, or command, that runs correctly when given a line from the above file. The variable WQ_EXAMPLE_TASK points to a sample script file.
- Test the task script manually, just to be sure.
- Make a copy of the file pointed to by WQ_PBS_TEMPLATE, and update the settings to suite your needs (user name, allocation code, other options.)
- Submit the PBS script as usual.
Resources
- WQ_DOCS environment variable that points to the full user manual in PDF form.
Last modified: October 31 2017 10:16:26.