Embedded Files
HPC (High Power Computing) Overview
High Power computing which is referred to as Henry2 at NCSU is a cluster of computers with a lot of memory and data storage space that can be accessed through a secure shell such as the Linux operating system based Terminal application on Mac personal computer (requires training).
The command line interface of Terminal enables logging into the head node opening files, moving files, navigating and launching software (common codes in the figure to the left)
Memory intensive jobs such as genome sequencing with millions of ATCG's is done by submitting a Batch script with codes for execution including type of computer nodes, length of runs, output directory etc.
** See subpages for scripts followed for the RNAseq Bioinformatics pipeline
HPC command line codes (navigating to course directory and creating directories) below:
HPC command line codes (navigating to course directory and creating directories) below:
ssh UnityID@login.hpc.ncsu.edu (enter password and authenticate account)
cd /share/bitcpt/Fall2022/UnityID (accessing the BIT 495/595 shared class directories)
cd ( to change directory)
cp ( to copy script)
mkdir ( to make directory eg: mkdir Portfolio)
bsub < jobname (to submit a job)
bjobs (to check the status of a submitted job)
Common issues and Troubleshooting
Commands are case sensitive
Spaces between the letters are part of commands and scripts
Wall clock time adjusted appropriately before submitting jobs
Files uploaded to galaxy are in txt format
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