Linux Commands

The CSF runs the Linux operating system. Interaction with the system is done by typing commands in to a terminal program. This can be a little daunting at first. The table below contains the basic Linux commands you will likely use on the CSF.

It is worth remembering that when you log in to the CSF, the folder you will be first in is your home directory (Windows users can think of this as similar to “My Documents”.) The home directory is private to you and where you should keep important files (it is backed-up storage).

The other useful thing is that the Linux term directory is what Windows users call a folder when talking about storage.

Commands specific to the batch system (not a default part of Linux) are covered in other sections of our documentation. Other useful Linux commands may also be mentioned elsewhere.

Commands Description
cd dir1
cd ~/dir1/dir2
cd ~/scratch
cd ..
cd 		Change directory (go in to dir1 which is located inside the current dir).
Go in to dir2 in dir1 in home (~ is shorthand for home)
Go in to your scratch directory (CSF-specific)
Go up to parent directory (e.g., from ~/dir1/dir2 to ~/dir1)
Go back to your home directory from where ever you currently are (useful if you become lost)
pwd Lost? Print Working Directory (display your current location – the folder you are currently working in)
ls
ls -lh
ls -lh file1 dirA
ls -lh dirA/*.dat

 List content (names of files and directories) of current directory
List in long form (dates, file sizes, names) current directory
List in long form (dates, file sizes, names) specified files, directories …
List in long form all files ending in .dat in directory dirA
(note that the -l in these commands is a lower-case letter L (not a number one)
cp fileA fileB
cp fileA dirA
cp fileA ~/scratch 		Copy (duplicate) a file (copy fileA to a new file fileB)
Copy (duplicate) a file in to the directory named dirA
Copy (duplicate) a file in to your scratch directory (CSF-specific)
mv fileC fileD
mv fileE dirA
mv fileF dirA/fileG 		Rename a file (from fileC to fileD). Works for directories too.
Move fileE in to sub-directory dirA (dirA must exist)
Move fileF AND rename it all in one go (dirA must exist)
rm fileH
rm dirA/fileB 		Delete (remove) a file (caution!!)
Delete (remove) a file named fileB from dirA
mkdir dirA
mkdir -p dirA/dirB/dirC 		Create (make) a new folder named dirA in current location (don’t use spaces in folder names!)
Create (make) a tree of folders starting at current location
rmdir dirA Delete (remove) an empty directory.
rm -rf dir1 Delete a directory and all files and other directories in there, down the entire tree (caution!!!!!)
gzip bigfile
 
gunzip bigfile.gz 		Compress a file (becomes bigfile.gz) to make better use of diskspace. Text files usually compress well.
Uncompress previously compressed file (becomes bigfile).
less file1
zless file2.gz 		Display the content of file1 (text file) a page at a time on screen.
If you’ve compressed file2 with gzip, no need to uncompress first.
Both commands accept the following keystrokes to navigate:
Press space to page down through a long file
Press return to scroll down a line at a time
Press b to scroll back up a page
Press G to go to end of file
Press q to quit/exit
cat file1
zcat file2.gz 		Dump entire file to screen (a quick way to look at text files).
If you’ve compress file2 with gzip, no need to uncompress first.
gedit file1 Edit file1 using a simple graphical text editor (similar to notepad on Windows). Make sure you have logged in enabling the ability to open graphical programs
on the CSF so that they display a window on your computer.
file filenameA Try to tell us what type of data is in filenameA. Useful to determine the output of some program where you are not sure what type of output it has generated. For example:
file output.dat
Might be ASCII text (so we can look at it with less or gedit)
or might be data (you'll need some other program to read it)
du -sh . How much disk space is current directory (all files and subdirs) using?
df -h . How much free space is there in the current area?

Further Information

If you would like to learn more we recommend the following training materials

Last modified on April 18, 2024 at 11:53 am by George Leaver