Case for Testing Your Code with Windows

You have developed your R code on your workstation, but the machine is not sufficient to run your entire data set. You have requested an account on the HPC and you need to test your code with some sample data before you submit your first job against your large data set.

  • In the connection settings of Global Protect, add vpn-groups.kennesaw.edu
    In you system tray, use the globe icon to click ‘Connect’.
  • Visit FileZilla.

  • Server: hpc.kennesaw.edu Port: 22
    Username: your_netid
    Password: your_netid_password

    08/22: SSH now requires a Duo authentication step to access the HPC
    (1 - Duo push, 2 - Phone call)

  • $ interact
    or
    $  qsub -I -q batch -l nodes=1:ppn=24,walltime=1:00:00
  • $ module load R

  • $ R

    R version 3.4.0 (2017-04-21) -- "You Stupid Darkness"
    Copyright (C) 2017 The R Foundation for Statistical Computing
    Platform: x86_64-pc-linux-gnu (64-bit)


    R is free software and comes with ABSOLUTELY NO WARRANTY.
    You are welcome to redistribute it under certain conditions.
    Type 'license()' or 'licence()' for distribution details.

    R is a collaborative project with many contributors.
    Type 'contributors()' for more information and
    'citation()' on how to cite R or R packages in publications.

    Type 'demo()' for some demos, 'help()' for on-line help, or
    'help.start()' for an HTML browser interface to help.
    Type 'q()' to quit R.

    > new_data<-runif(10, min=0, max=100)

    > new_data<-round(new_data, 2)

    > new_data

     [1] 36.05 40.69  9.76  1.91  5.91  1.73 22.79 11.85 48.79  8.83

    > new_data<-sort(new_data)

    > new_data

     [1]  1.73  1.91  5.91  8.83  9.76 11.85 22.79 36.05 40.69 48.79

    > mean(new_data)

    [1] 18.831

    > sum(new_data)

    [1] 188.31

    > sd(new_data)

    [1] 17.20555

    > jpeg('new_data_plot.jpg')

    > plot(new_data)

    > dev.off

    > q()

    Save workspace image? [y/n/c]: n

  • $ ls -l new_data_plot.jpg

    -rw-rw-r-- 1 user group 10917 Apr 16 19:29 new_data_plot.jpg

  • $ scp your_netid@hpc.kennesaw.edu:/data/home/your_netid/new_data_plot.jpg.