= Your Survival Guide to Unix at the CBSU =

== Commands ==
|| '''Function''' || '''Command'''  || '''Options''' ||
|| Show contents of current directory ||	''ls''   ||  details: ''ls –l'', hidden files: ''ls –a'', output to file: ''ls > file.txt'', wild cards: ''ls *.txt'' ||
|| Change directory ||	''cd <newdir>''  || e.g. ''cd /home/myname/mydatadir'', one up: ''cd ..'' (e.g. ''cd ../batchfiles'', to home directory: ''cd ~'') ||
||Make directory || ''mkdir <newdir>'' || ||
|| Copy file/directory || ''cp <old> <new>'' || ||
|| Move file || ''mv <old> <new>'' || ||
|| Delete file || ''rm <filename>'' || delete directory: ''rm –r <dirname>'' ||
|| Search for files in directory structures || ''find'' ||  ||
|| Find letter string within text || grep || ''grep error logfile.txt'', ''grep <yourname> | ps -ef''  ||
|| See list of previous commands || ''history'' || ||
|| Execute command from history list || ''!<x>'', where ''x'' is number in history list || e.g. '''!112'' ||
|| Changing access permissions || ''chmod'' || e.g. ''chmod 755 <myfile>'' ||
|| Show load of linux boxes  || ''showload'' || ||
|| Change linux box  || ''ssh <machine>'' || e.g. ''ssh l42'' ||
|| Show current processes || ''ps'' || ''ps -ef'' ||
|| Show most CPU-intensive tasks on current processor || ''top'' || ||
|| Checking where an executable file is located || ''which <filename>'' ||  ||
|| Show features of current linux box || ''uname –a'' || ||
|| Check your user name || ''whoami'' || ||
|| Convert text files from DOS to Unix || ''dos2unix <filename>'' || ||
|| Edit files  || ''nedit'', ''emacs'', ''vi'' || ||
|| Help on linux commands || ''man yourcommand'' (quit typing ''q'') || ||

== Useful Tricks ==
|| Use cursor keys up/down to get previous commands ||
|| Copy/paste: mark text with left mouse button, click to destination, click middle mouse button ||
|| Auto-complete commands: start typing, then “Tab” to complete to next unique possibility ||


== General ==
|| VNC (http://imaging.mrc-cbu.cam.ac.uk/imaging/UsingVNC): Putty, ''vncserver –geometry 1280x1024 –name <somename>, for OpenGL graphics: ''vncserver.glx -geometry 1280x1024 -name <somename>'' ||
|| Access home space: Windows \\home\username; Linux /home/username ||
|| Access imaging space: Windows \\samfs-lh\imaging; Linux /imaging/username ||
|| 32-bit machines:  l21, l24-31, l33-l36, l37-l42       64-bit machines: l43-l63	OpenGL machines: l37-l42 ||
|| Computing on Intranet: http://intranet.mrc-cbu.cam.ac.uk/computing/ ||
|| Intro to Unix: http://www.ee.surrey.ac.uk/Teaching/Unix/ ||
|| Overview of CBU computing: http://imaging.mrc-cbu.cam.ac.uk/meg/Beginners/MatlabIntroCBU?action=AttachFile&do=get&target=RussellComputing.pdf ||