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<div id="content">
<div id="table-of-contents">
<h2>Table of Contents</h2>
<div id="text-table-of-contents">
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orge913d35">Getting information about Python(3) libraries</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#org52e07d0">Getting the list of installed packages and their version</a></li>
<li style="margin-bottom:0;"><a href="#org8f1294b">How to list imported modules?</a></li>
<li style="margin-bottom:0;"><a href="#org366ec78">Setting up an environment with pip</a></li>
</ul>
</li>
<li style="margin-bottom:0;"><a href="#org7b419ec">Getting information about R libraries</a></li>
</ul>
</div>
</div>
<div id="outline-container-orge913d35" class="outline-2">
<h2 id="orge913d35">Getting information about Python(3) libraries</h2>
<div class="outline-text-2" id="text-orge913d35">
</div>
<div id="outline-container-org52e07d0" class="outline-3">
<h3 id="org52e07d0">Getting the list of installed packages and their version</h3>
<div class="outline-text-3" id="text-org52e07d0">
<p>
<a href="https://stackoverflow.com/questions/20180543/how-to-check-version-of-python-modules">https://stackoverflow.com/questions/20180543/how-to-check-version-of-python-modules</a>
</p>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-shell">pip3 freeze
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
asn1crypto==0.24.0
attrs==17.4.0
bcrypt==3.1.4
beautifulsoup4==4.6.0
bleach==2.1.3
...
pandas==0.22.0
pandocfilters==1.4.2
paramiko==2.4.0
patsy==0.5.0
pexpect==4.2.1
...
traitlets==4.3.2
tzlocal==1.5.1
urllib3==1.22
wcwidth==0.1.7
webencodings==0.5
</pre>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-shell">pip3 show pandas
<span style="font-weight: bold;">echo</span> <span style="font-style: italic;">" "</span>
pip3 show statsmodels
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
Name: pandas
Version: 0.22.0
Summary: Powerful data structures for data analysis, time series,and statistics
Home-page: http://pandas.pydata.org
Author: None
Author-email: None
License: BSD
Location: /usr/lib/python3/dist-packages
Requires:
Name: statsmodels
Version: 0.9.0
Summary: Statistical computations and models for Python
Home-page: http://www.statsmodels.org/
Author: None
Author-email: None
License: BSD License
Location: /home/alegrand/.local/lib/python3.6/site-packages
Requires: patsy, pandas
</pre>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-python">
</pre>
</div>
</div>
</div>
<div id="outline-container-org8f1294b" class="outline-3">
<h3 id="org8f1294b">How to list imported modules?</h3>
<div class="outline-text-3" id="text-org8f1294b">
<p>
Inspiring from <a href="https://stackoverflow.com/questions/4858100/how-to-list-imported-modules">StackOverflow</a>, here is a simple function that lists
loaded package (that have a <code>__version__</code> attribute, which is
unfortunately not completely standard).
</p>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-python"><span style="font-weight: bold;">def</span> <span style="font-weight: bold;">print_imported_modules</span>():
<span style="font-weight: bold;">import</span> sys
<span style="font-weight: bold;">for</span> name,val <span style="font-weight: bold;">in</span> <span style="font-weight: bold;">sorted</span>(sys.modules.items()):
<span style="font-weight: bold;">if</span>(<span style="font-weight: bold;">hasattr</span>(val, <span style="font-style: italic;">'__version__'</span>)):
<span style="font-weight: bold;">print</span>(val.<span style="font-weight: bold;">__name__</span>, val.__version__)
<span style="font-weight: bold;">print</span>(<span style="font-style: italic;">"**** Package list in the beginning ****"</span>);
print_imported_modules()
<span style="font-weight: bold;">print</span>(<span style="font-style: italic;">"**** Package list after loading pandas ****"</span>);
<span style="font-weight: bold;">import</span> pandas
print_imported_modules()
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
**** Package list in the beginning ****
**** Package list after loading pandas ****
_csv 1.0
_ctypes 1.1.0
decimal 1.70
argparse 1.1
csv 1.0
ctypes 1.1.0
cycler 0.10.0
dateutil 2.7.3
decimal 1.70
distutils 3.6.5rc1
ipaddress 1.0
json 2.0.9
logging 0.5.1.2
matplotlib 2.1.1
numpy 1.14.5
numpy.core 1.14.5
numpy.core.multiarray 3.1
numpy.core.umath b'0.4.0'
numpy.lib 1.14.5
numpy.linalg._umath_linalg b'0.1.5'
pandas 0.22.0
_libjson 1.33
platform 1.0.8
pyparsing 2.2.0
pytz 2018.5
re 2.2.1
six 1.11.0
urllib.request 3.6
zlib 1.0
</pre>
</div>
</div>
<div id="outline-container-org366ec78" class="outline-3">
<h3 id="org366ec78">Setting up an environment with pip</h3>
<div class="outline-text-3" id="text-org366ec78">
<p>
The easiest way to go is as follows:
</p>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-shell">pip3 freeze &gt; requirements.txt <span style="font-weight: bold; font-style: italic;"># </span><span style="font-weight: bold; font-style: italic;">to obtain the list of packages with their version</span>
pip3 install -r requirements.txt <span style="font-weight: bold; font-style: italic;"># </span><span style="font-weight: bold; font-style: italic;">to install the previous list of packages, possibly on an other machine</span>
</pre>
</div>
<p>
If you want to have several installed python environments, you may
want to use <a href="https://docs.pipenv.org/">Pipenv</a>. I doubt it allows to track correctly FORTRAN or C
dynamic libraries that are wrapped by Python.
</p>
</div>
</div>
</div>
<div id="outline-container-org7b419ec" class="outline-2">
<h2 id="org7b419ec">Getting information about R libraries</h2>
<div class="outline-text-2" id="text-org7b419ec">
<p>
The best way seems to be to rely on the <code>devtools</code> package.
</p>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-R">sessionInfo()
devtools::session_info()
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
R version 3.5.1 (2018-07-02)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux buster/sid
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.8.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.8.0
locale:
[1] LC_CTYPE=fr_FR.UTF-8 LC_NUMERIC=C
[3] LC_TIME=fr_FR.UTF-8 LC_COLLATE=fr_FR.UTF-8
[5] LC_MONETARY=fr_FR.UTF-8 LC_MESSAGES=fr_FR.UTF-8
[7] LC_PAPER=fr_FR.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=fr_FR.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] compiler_3.5.1
Session info ------------------------------------------------------------------
setting value
version R version 3.5.1 (2018-07-02)
system x86_64, linux-gnu
ui X11
language (EN)
collate fr_FR.UTF-8
tz Europe/Paris
date 2018-08-01
Packages ----------------------------------------------------------------------
package * version date source
base * 3.5.1 2018-07-02 local
compiler 3.5.1 2018-07-02 local
datasets * 3.5.1 2018-07-02 local
devtools 1.13.6 2018-06-27 CRAN (R 3.5.1)
digest 0.6.15 2018-01-28 CRAN (R 3.5.0)
graphics * 3.5.1 2018-07-02 local
grDevices * 3.5.1 2018-07-02 local
memoise 1.1.0 2017-04-21 CRAN (R 3.5.1)
methods * 3.5.1 2018-07-02 local
stats * 3.5.1 2018-07-02 local
utils * 3.5.1 2018-07-02 local
withr 2.1.2 2018-03-15 CRAN (R 3.5.0)
</pre>
<p>
Some actually advocate that <a href="https://github.com/ropensci/rrrpkg">writing a reproducible research compendium
can be done by writing an R package</a>. Those of you willing to have a
clean R dependency management should thus have a look at <a href="https://rstudio.github.io/packrat/">Packrat</a>.
</p>
</div>
</div>
</div>
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