This shows a list of Python 3 installed packages which may need to be present in the system in order to reproduce our results.

list.txt

apturl>=0.5.2
backports-abc>=0.4
beautifulsoup4>=4.3.2
blinker>=1.3
bokeh>=0.10.0
bottle>=0.12.7
Brlapi>=0.6.2
camplight>=0.9.6
cffi>=1.1.2
chardet>=2.3.0
checkbox-ng>=0.20.1
checkbox-support>=0.20
click>=6.2
colorama>=0.3.3
command-not-found>=0.3
cryptography>=1.0.1
cycler>=0.9.0
Cython>=0.23.4
decorator>=4.0.6
defer>=1.0.6
Django>=1.8.5
docker-py>=1.3.1
docutils>=0.12
enum34>=1.1.1
feedparser>=5.1.3
Flask>=0.10.1
Glances>=2.3
html5lib>=0.999
httplib2>=0.9
idna>=2.0
influxdb>=2.6.0
ipyext>=0.1.0
ipykernel>=4.2.1
ipyparallel>=4.1.0
ipython>=4.0.1
ipython-genutils>=0.1.0
ipywidgets>=4.1.1
itsdangerous>=0.24
jedi>=0.9.0
Jinja2>=2.8
jsonschema>=2.5.1
jupyter>=1.0.0
jupyter-client>=4.1.1
jupyter-console>=4.0.3
jupyter-core>=4.0.6
language-selector>=0.1
louis>=2.6.2
lxml>=3.4.4
Mako>=1.0.2
MarkupSafe>=0.23
matplotlib>=1.5.0
mistune>=0.7.1
mpmath>=0.19
Nautilus-scripts-manager>=2.0
nbconvert>=4.1.0
nbformat>=4.0.1
netifaces>=0.10.4
networkx>=1.10
nltk>=3.1
nose>=1.3.6
notebook>=4.0.6
numexpr>=2.4.3
numpy>=1.10.1
oauthlib>=1.0.0
onboard>=1.1.2
oneconf>=0.3.8
pandas>=0.17.0
pandas-confusion>=0.0.6
pandasql>=0.6.3
path.py>=8.1.2
pep8>=1.6.2
pexpect>=4.0.1
pickleshare>=0.5
Pillow>=3.0.0
piston-mini-client>=0.7.5
plainbox>=0.22.2
ply>=3.7
psutil>=2.2.1
ptyprocess>=0.5
pyasn1>=0.1.8
pycparser>=2.14
pycrypto>=2.6.1
pycups>=1.9.73
pycurl>=7.19.5.1
pyflakes>=0.9.2
Pygments>=2.0.2
pygobject>=3.16.2
PyJWT>=1.0.0
pyparsing>=2.0.5
pysmbc>=1.0.15.4
pysnmp>=4.2.5
pystache>=0.5.4
python-apt>>=1.0.1-ubuntu0.1
python-dateutil>=2.4.2
python-debian>=0.1.27
pytz>=2015.7
pyxdg>=0.25
PyYAML>=3.11
pyzmq>=15.1.0
qtconsole>=4.1.1
Quandl>=2.8.9
reportlab>=3.2.0
requests>=2.8.1
roman>=2.0.0
scikit-image>=0.11.3
scikit-learn>=0.17
scipy>=0.16.1
sessioninstaller>=0.0.0
simplegeneric>=0.8.1
six>=1.10.0
software-center-aptd-plugins>=0.0.0
Sphinx>=1.2.3
spyder>=2.3.6
sympy>=0.7.6
TA-Lib>=0.4.9
tables>=3.2.2
terminado>=0.5
tornado>=4.3
traitlets>=4.0.0
ubuntu-drivers-common>=0.0.0
ufw>=0.34
unattended-upgrades>=0.1
unity-scope-audacious>=0.1
unity-scope-calculator>=0.1
unity-scope-chromiumbookmarks>=0.1
unity-scope-clementine>=0.1
unity-scope-colourlovers>=0.1
unity-scope-devhelp>=0.1
unity-scope-firefoxbookmarks>=0.1
unity-scope-gdrive>=0.7
unity-scope-gmusicbrowser>=0.1
unity-scope-gourmet>=0.1
unity-scope-guayadeque>=0.1
unity-scope-manpages>=0.1
unity-scope-musique>=0.1
unity-scope-openclipart>=0.1
unity-scope-texdoc>=0.1
unity-scope-tomboy>=0.1
unity-scope-virtualbox>=0.1
unity-scope-yelp>=0.1
unity-scope-zotero>=0.1
unity-tweak-tool>=0.0.6
urllib3>=1.11
usb-creator>=0.2.23
virtualenv>=13.1.2
websocket-client>=0.18.0
Werkzeug>=0.10.4
wheel>=0.24.0
xdiagnose>=3.8.1
xkit>=0.0.0
XlsxWriter>=0.7.3

R version

Session info ------------------------------------------------------------------------------------------------------------------
 setting  value                       
 version  R version 3.2.3 (2015-12-10)
 system   x86_64, linux-gnu           
 ui       RStudio (0.99.1054)         
 language en_US                       
 collate  en_US.UTF-8                 
 tz       <NA>                        
 date     2016-02-07      

version.ipynb

To install above packages, store this file as req.txt and use

sudo pip3 install -r req.txt

Source: https://stackoverflow.com/questions/9956741/how-to-install-multiple-python-packages-at-once-using-pip

Use for updating and upgrading the Python packages:

sudo pip3 freeze --local | grep -v '^\-e' | cut -d = -f 1 | xargs -n1 sudo pip3 install -U

Taken from: https://stackoverflow.com/questions/2720014/upgrading-all-packages-with-pip