Trinity
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Description
Trinity contains three applications - Inchworm, Chrysalis, and Butterfly.
How To Run
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.