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Trinity contains three applications - Inchworm, Chrysalis, and Butterfly. | Trinity contains three applications - Inchworm, Chrysalis, and Butterfly. | ||
<!--Modules--> | <!--Modules--> | ||
==Required Modules== | |||
[[Modules|modules documentation]] | |||
{{#if: {{#var: exe}}|== | ===Serial=== | ||
*{{#var:app}} | |||
==System Variables== | |||
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory | |||
* ALLPATHSLG_BASEDIR - Allpaths-LG installation directory | |||
<!--Additional--> | |||
{{#if: {{#var: exe}}|==Additional Information== | |||
To run Trinity after you load the module use the "Trinity.pl" perl script, or run_Trinity.sh shell script, which is particularly useful as the optional ALLPATHS-LG software is enabled at UF HPC. | To run Trinity after you load the module use the "Trinity.pl" perl script, or run_Trinity.sh shell script, which is particularly useful as the optional ALLPATHS-LG software is enabled at UF HPC. | ||
Revision as of 20:00, 10 August 2012
Description
Trinity contains three applications - Inchworm, Chrysalis, and Butterfly.
Required Modules
Serial
- trinity
System Variables
- HPC_{{#uppercase:trinity}}_DIR - installation directory
- ALLPATHSLG_BASEDIR - Allpaths-LG installation directory
Additional Information
To run Trinity after you load the module use the "Trinity.pl" perl script, or run_Trinity.sh shell script, which is particularly useful as the optional ALLPATHS-LG software is enabled at UF HPC.
If the run produces an error that states that java could not create a virtual machine due to insufficient heap memory you can set the java memory with an
export _JAVA_OPTIONS="-Xmx2g"
command either at the command line if doing an interactive run on a test node or in the job script. Make sure that the value in the "-Xmx" is less then the amount of memory you requested from the batch system.