I am a big fan of linux. I enjoy ssh-ing into servers and using the command line, but since I don’t necessarily use linux every day, I sometimes forget some of the commands, so I keep this reference for myself.

Linux Commands

Users and Groups

  • getent passwd shows a list of all the users on the server.
  • sudo passwd <username> allows a sudoer to change the password of a user.
  • groups shows a list of all the groups in use.
  • groups <username> shows which groups <username> is a member of.
  • sudo /usr/sbin/usermod -aG <groupname> <username> adds <username> to group <username> (/usr/sbin/ only necessary if usermod command is not found).
  • id -Gn shows which groups you belong to.


  • df shows the amount of free space on your drive.
  • free shows the amount of free memory on your machine.
  • ls lists the files in the current folder. ls -l is helpful because it shows the owner of each folder and file permissions. Permission denied problems can be very confusing to fix in linux. ls -alg is very comprehensive and shows the list of all files as a list and groups the directories first.
  • mkdir new_folder_name is used to make a directory.
  • pwd prints the current working directory.
  • rmdir folder_name is used to remove a folder, recursively deleteing the files in the folder. If you get an error that the folder is not empty (which I always do), add the -r option after ‘rmdir’, but make sure you don’t want the files because there is no recycle bin in linux.
  • rm -r <mydir> will delete a folder even if it is not empty.
  • rm -rf <mydir> will delete a folder even if it is not empty without any prompts.


  • history shows a list of previous commands. What’s nice is that you can re-run any command by using the bang operator and the line number (i.e. !5). You can clear the history using history -c.
  • ps auxw | grep <program name> to get a list of the process ids (pid) associated with a running program.
  • lscpu shows CPU information.


If you even get an error that you cannot connect to your home drive, say /home/bosr/, try this as root to fix it (don’t ask me how I know this).

chmod -R 755 /home/bosr


You can stop, start, or restart a service as such, using NGINX as an example:

systemctl stop nginx
systemctl start nginx
systemctl restart nginx

Git Commands / Notes

git init
git add .
git commit -m "msg"
git branch # view branches and see current one
git checkout -b "new branch name" # add a branch
git remote add origin "https://github.com/rogerjbos/<newrepo>.git" # define origin
git push -u origin master # push local code to remote repo
git push origin my_new_branch # push new branch to the remove repo
git pull origin master # get new version of code onto local computer
git log
git status

Misc Notes

R command line commands for CentOS server

sudo R --vanilla
yum update R

My use case is that I cannot write to my linux drive from Windows (though I can write it my Windows drive from linux), so I write to a windows drive and create a symbolic link on my linux server so I can serve the file via the web server.

ln -s file1 link1
ln -s //media/research/R_HOME/linux/reports/LC.html //data/shiny/doc/LC.html
ln -s //media/research/R_HOME/linux/reports/SC_SMC.html //data/shiny/doc/SC_SMC.html
ln -s //media/research/R_HOME/linux/reports/SCG.html //data/shiny/doc/SCG.html

ls -l

Linux & Flask/yagmail/cifs

apt-get install cifs-utils
apt-get install python-dev
apt-get install python-twisted
apt-get install python-pip
pip install setuptools
pip install requests
pip install keyrings.alt
pip install yagmail
pip install Flask
pip install flask_login
dpkg-reconfigure tzdata

Map network drives using /etc/fstab entry

// /mnt/bosdrive cifs rw,guest,iocharset=utf8,file_mode=0777,dir_mode=0777,noperm,users 0 0

Create a service for HoneyAlarmServer in a file called /etc/init.d/HoneyAlarmServer

# /etc/init.d/HoneyAlarmServer


start() {
        echo -n $"Starting $prog:"
        [ "$RETVAL" = 0 ] && touch /var/lock/subsys/$prog
        cd /home/rjbos/HoneyAlarmServer
        sudo python /home/rjbos/HoneyAlarmServer/alarmserver.py&

stop() {
        echo -n $"Stopping $prog:"
        killproc $prog -TERM
        [ "$RETVAL" = 0 ] && rm -f /var/lock/subsys/$prog

reload() {
        echo -n $"Reloading $prog:"
        killproc $prog -HUP

case "$1" in
                if [ -f /var/lock/subsys/$prog ] ; then
                        # avoid race
                        sleep 3
                status $prog
                echo $"Usage: $0 {start|stop|restart|reload|condrestart|status}"
exit $RETVAL

Configuring CUPS for network printing

Administrator > Add Printer
select Internet Printing Protocol
something like socket://
Select PPD File: For Brother 2230 select 2170

Common Apache2 Tasks

Restating Apache2:
sudo service apache2 restart
Viewing the error log in Apache2:
tail -40 /var/log/apache2/error.log

Other Packages Needed

sudo apt-get install r-cran-rodbc
sudo apt-get install r-cran-xml
# needed for devtools package
sudo apt-get install libcurl4-gnutls-dev 
sudo apt-get install texinfo

R configurations


# Get your current repo name
current_repo <- getOption("repos")
current_repo["CRAN"] <- "http://lib.stat.cmu.edu/R/CRAN/"
options(repos = current_repo)
roger_env <- new.env()
# If you don't want to clutter this file, leave functions elsewhere.
sys.source(".my_custom_functions.r", envir = roger_env)

Handy: Configure R to use more than one core when compile source code.

~/.Renviron or /usr/lib64/R/etc/Renviron.site


Install Kodi to the Fire TV

adb kill-server
adb start-server
adb connect <ip-address-of-fire-tv>
adb is connected when it reports the message "connected to <ip-address-of-fire-tv>:<port>"

New Install

adb install <apk-file-name>
adb install -r <apk-file-name>

Installation is complete when it reports the message “success” (Note: For Android you need to type in the full path. e.g. >adb install /sdcard/Download/apk-file-name.apk)