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Also see our About R and R Studio Server help page.

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Also, we recommend you use rsync over scp. While both work, rsync has much better performance (it is multi-threaded) and has the ability to pick up where it left off when transferring large directories. Unfortunately, its man page is about the length of War and Peace, but 90% of the time there is an easy formula. For example, to invoke rsync on a directory ~/foo at TACC (for example) to a local shared Work area directory for the GSAF group on the GSAF POD:

# Target the storage server from the UT campus network
rsync -avrW ~/foo/ \
  abattenh@gsafstor01.ccbb.utexas.edu:/stor/work/GSAF/foo/

# Target the storage server from off campus with VPN service active
rsync -avrW -e 'ssh -p 222' ~/foo/ \
  abattenh@gsafstor01.ccbb.utexas.edu:/stor/work/GSAF/foo/

Note that the trailing slash ( / ) characters for the source and target directory names are very important.

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• the <user>portion is your BRCF account name (abattenh above)
• the <storage_server> portion is the full host name of your BRCF storage server (gsafstor01.ccbb.utexas.edu above)
  • see this table to identify your POD's storage server: Available PODs
• the <group> portion matches your Linux group name on your POD (GSAF above)
  
  • type groups when logged into one of your POD compute servers to list your group(s)
• the -avrW options say to sync the entire directory tree, and to handle large files efficiently.
• the -e 'ssh -p 222' option tells rsync to use non-standard port 222 from off campus.

Finally, it is important that large files not be transferred to your POD Home directory, as that directory has a 100 GB quota. See Home directory quotas for more information.

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From your X11-enabled terminal, use ssh -Y to connect to the POD compute server (the -Y enables forwarding of the X11 commands to the X-terminal). Once logged in, type matlab. This will (slowly) open a graphical window to run matlab in.

Here's how to create a script in matlab.

• In the "Command Window" in the middle of the matlab window, type "1+1" and hit return, it should say "2".
• Click the "New Script" button at the upper left (or the "New" Button, then select "Script" if you don't see "New Script").
  
  • This will open an editing window for a script. 
    
• Type "1+1" in the window, then click "Save" from the upper menu. 
  
  • Name it anything with a ".m" extension (such as untitled.m, the default). 
    
• You can then use then "Open" menu, or the "Current Folder" pain, to open that file in the future.
• Once open in the Editor, you can use the "Run" command from the Editor menu to run it.
• Exit matlab (using either the "exit" or "quit" command)
  

To open matlab without the graphical interface, type the not-so-short or intuitive command: matlab -nodisplay -nosplash. This should give an interactive command prompt. To exit, type quit or exit. Other sometimes-useful options for the non-GUI matlab include -nojvm (might speed things up a bit) and -wait (wait until your jobs finish before exiting).

To run the "script" we created above (called untitled.m in your home directory) and exit, you can do something like:

matlab -nodisplay -nosplash -r "run('~/untitled.m');quit"

To add some error checking, you can use:

matlab -nodisplay -nosplash -r "try, run('~/untitled.m'), catch, exit, end, exit"

Another simple example script could be created and executed from the command line as shown below. (It should tell you the answer is "7.3529".)

echo "5^3/(2^4+1)" > ~/untitled2.m
matlab -nodisplay -nosplash -nojvm -r "run('~/untitled2.m');quit"

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