VisIT is an interactive parallel visualization and graphical analysis tool for viewing scientific data on Unix and PC platforms.
VisIT is an interactive tool, and requires a login session to use.
Version and Availability
▶ Display Softenv Keys for visit all clusters
You will need to add one of the following set of keys to your software environment, depending on whether or not you want the serial or parallel version:
Keys For Serial Use:
Keys For Parallel Use:
+gcc-4.3.2 +mvapich-1.1-gcc-4.3.2 +visit-1.12.1-gcc-4.3.2-mvapich-1.1
Since upgrades will happen, verify the keys available using the command: softenv -k.
▶ Softenv FAQ?
The information here is applicable to LSU HPC and LONI systems.
SoftEnv is a utility that is supposed to help users manage complex user environments with potentially conflicting application versions and libraries.
System Default Path
When a user logs in, the system /etc/profile or /etc/csh.cshrc (depending on login shell, and mirrored from csm:/cfmroot/etc/profile) calls /usr/local/packages/softenv-1.6.2/bin/use.softenv.sh to set up the default path via the SoftEnv database.
SoftEnv looks for a user's ~/.soft file and updates the variables and paths accordingly.
Viewing Available Packages
Using the softenv command, a user may view the list of available packages. Currently, it can not be ensured that the packages shown are actually available or working on the particular machine. Every attempt is made to present an identical environment on all of the LONI clusters, but sometimes this is not the case.
$ softenv These are the macros available: * @default These are the keywords explicitly available: +amber-8 Applications: 'Amber', version: 8 Amber is a +apache-ant-1.6.5 Ant, Java based XML make system version: 1.6. +charm-5.9 Applications: 'Charm++', version: 5.9 Charm++ +default this is the default environment...nukes /etc/ +essl-4.2 Libraries: 'ESSL', version: 4.2 ESSL is a sta +gaussian-03 Applications: 'Gaussian', version: 03 Gaussia ....
Listing of Available Packages
For a more accurate, up to date list, use the softenv command.
Currently there are some caveats to using this tool.
- packages might be out of sync between what is listed and what is actually available
- resoft and soft utilities are not; to update the environment for now, log out and login after modifying the ~/.soft file.
softenv is available on all LSU HPC and LONI clusters to all users in both interactive login sessions (i.e., just logging into the machine) and the batch environment created by the PBS job scheduler on Linux clusters and by loadleveler on AIX clusters..
This information can be viewed using the softenv command:
Managing Environment with SoftEnv
The file ~/.soft in the user's home directory is where the different packages are managed. Add the +keyword into your .soft file. For instance, ff one wants to add the Amber Molecular Dynamics package into their environment, the end of the .soft file should look like this:
To update the environment after modifying this file, one simply uses the resoft command:
To run a serial instance, simply type visit on the command line. You can use visit -h to see what command options are available.
Complex processing on large amounts of data can be done on multiple processors in parallel, but requires some preparation. The first thing you will have to do is set up a host profile on each cluster you plan to use.
To create or modify a host profile, run: visit -gui
From the Options menu, select Host profiles. . .
On the Selected profile tab, make sure "Host name aliases" are defined, based on the cluster's host name. For a host name of the form
Enter the following in the "Host name aliases" box:
This is an example of what it should look like:
Then, on the Parallel options tab, set the MPI startup command, the number of nodes to use, and the number of cores. You'll have to be aware of how many cores per node are available on the cluster you're using. When done, it will look like this:
Profiles you define in this way are available for future use. You'll need a profile to match each set of nodes/cores you plan to use. When it comes time to process, the action of opening a file will pop up a dialog box to have you select the proper profile. Based on the example above, it will look like:
When the parallel version of Visit is executed, and the above profile is used, the following text should appear:
$ visit gui Running: mpirun -np 8 /usr/local/packages/visit/1.12.1/gcc-4.3.2-mvapich-1.1/1.12.1/linux-x86_64/bin/engine_par -host painter055 -noloopback -forcestatic -timeout 480 -port 5600 -plugindir :/home/lyan1/.visit/linux-x86_64/plugins:/usr/local/packages/visit/1.12.1/gcc-4.3.2-mvapich-1.1/1.12.1/linux-x86_64/plugins
- On-Line Documentation, including manual, FAQ, and more.
Last modified: March 07 2013 12:30:04.