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Besides learning to use commands, you will at least need to learn some basic shell scripting so that you can write job scripts to submit to the cluster's batch queuing system. The cluster requires those job scripts be written in the syntax of the BASH shell, so our UNIX accounts are created using BASH. You might want to pick up a book on BASH. The O'Reilly and Associates book Learning the BASH Shell is very good. In the event that you need something more than what we can provide with 3rd party software, you may want to learn to program in a language such as C, C++, or Fortran. Alternatively, you may want use one of the more advanced Linux scripting languages such as perl, or python which we install with their add-on modules BioPerl, and BioPython (among others). Again [O'Reilly and Associates|http://www.ora.com] is a good source for books on these subjects, as might be the Computer Science classes. The ?[Department of Statistics and Scientifc Computing|http://www.ssc.utexas.edu] Scientific Computing also offers entry level programming courses.
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For more cluster specific information the [Documentation] part site contains a link to ?[, our Documentation page has a link for Cluster Specific Documentation].