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mooc-rr-ressources
Commit 980d7c9b authored by Arnaud Legrand's avatar Arnaud Legrand
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<h2>Table of Contents</h2> <h2>Table of Contents</h2>
<div id="text-table-of-contents"> <div id="text-table-of-contents">
<ul style="margin:0 0;"> <ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orge913d35">Getting information about Python(3) libraries</a> <li style="margin-bottom:0;"><a href="#org3fa36ea">Getting information about your Git repository</a></li>
<li style="margin-bottom:0;"><a href="#org6a159b4">Getting information about Python(3) libraries</a>
<ul style="margin:0 0;"> <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="#orga5f397e">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="#orgc077b2a">How to list imported modules?</a></li>
<li style="margin-bottom:0;"><a href="#org366ec78">Setting up an environment with pip</a></li> <li style="margin-bottom:0;"><a href="#org8cd9f14">Setting up an environment with pip</a></li>
</ul> </ul>
</li> </li>
<li style="margin-bottom:0;"><a href="#org7b419ec">Getting information about R libraries</a></li> <li style="margin-bottom:0;"><a href="#org2582136">Getting information about R libraries</a></li>
</ul> </ul>
</div> </div>
</div> </div>
<div id="outline-container-orge913d35" class="outline-2"> <div id="outline-container-org3fa36ea" class="outline-2">
<h2 id="orge913d35">Getting information about Python(3) libraries</h2> <h2 id="org3fa36ea">Getting information about your Git repository</h2>
<div class="outline-text-2" id="text-orge913d35"> <div class="outline-text-2" id="text-org3fa36ea">
<p>
When taking notes, it may be difficult to remember which version of
the code or of a file was used. This is what version control is useful
for. Here are a few useful commands that we typically insert at the
top of our notebooks in shell cells
</p>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-shell">git log -1
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
commit 741b0088af5b40588493c23c46d6bab5d0adeb33
Author: Arnaud Legrand &lt;arnaud.legrand@imag.fr&gt;
Date: Tue Sep 4 12:45:43 2018 +0200
Fix a few typos and provide information on jupyter-git plugins.
</pre>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-shell">git status
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
On branch master
Your branch is ahead of 'origin/master' by 4 commits.
(use "git push" to publish your local commits)
Changes not staged for commit:
(use "git add &lt;file&gt;..." to update what will be committed)
(use "git checkout -- &lt;file&gt;..." to discard changes in working directory)
modified: resources.org
Untracked files:
(use "git add &lt;file&gt;..." to include in what will be committed)
../../module2/ressources/replicable_article/IEEEtran.bst
../../module2/ressources/replicable_article/IEEEtran.cls
../../module2/ressources/replicable_article/article.bbl
../../module2/ressources/replicable_article/article.tex
../../module2/ressources/replicable_article/data.csv
../../module2/ressources/replicable_article/figure.pdf
../../module2/ressources/replicable_article/logo.png
.#resources.org
no changes added to commit (use "git add" and/or "git commit -a")
</pre>
<p>
Then, I often include commands at the end of my notebook indicating
how to commit the results (adding the new files, committing with a
clear message and pushing). E.g.,
</p>
<div class="org-src-container">
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="src src-shell">git add resources.org;
git commit -m <span style="font-style: italic;">"Completing the section on getting Git information"</span>
git push
</pre>
</div>
<pre style="padding-left: 30px; background-color: #f6f8fa;" class="example">
[master 514fe2c1 ] Completing the section on getting Git information
1 file changed, 61 insertions(+)
Counting objects: 25, done.
Delta compression using up to 4 threads.
Compressing objects: 100% (20/20), done.
Writing objects: 100% (25/25), 7.31 KiB | 499.00 KiB/s, done.
Total 25 (delta 11), reused 0 (delta 0)
To ssh://app-learninglab.inria.fr:9418/learning-lab/mooc-rr-ressources.git
6359f8c..1f8a567 master -&gt; master
</pre>
<p>
Obviously, in this case you need to save the notebook before running
this cell, hence the output of this final command (with the new git
hash) will not be stored in the cell. This is not really a problem and
is the price to pay for running git from within the notebook itself.
</p>
</div>
</div>
<div id="outline-container-org6a159b4" class="outline-2">
<h2 id="org6a159b4">Getting information about Python(3) libraries</h2>
<div class="outline-text-2" id="text-org6a159b4">
</div> </div>
<div id="outline-container-org52e07d0" class="outline-3"> <div id="outline-container-orga5f397e" class="outline-3">
<h3 id="org52e07d0">Getting the list of installed packages and their version</h3> <h3 id="orga5f397e">Getting the list of installed packages and their version</h3>
<div class="outline-text-3" id="text-org52e07d0"> <div class="outline-text-3" id="text-orga5f397e">
<p> <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> <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> </p>
...@@ -86,9 +175,9 @@ Requires: patsy, pandas ...@@ -86,9 +175,9 @@ Requires: patsy, pandas
</div> </div>
</div> </div>
<div id="outline-container-org8f1294b" class="outline-3"> <div id="outline-container-orgc077b2a" class="outline-3">
<h3 id="org8f1294b">How to list imported modules?</h3> <h3 id="orgc077b2a">How to list imported modules?</h3>
<div class="outline-text-3" id="text-org8f1294b"> <div class="outline-text-3" id="text-orgc077b2a">
<p> <p>
Inspiring from <a href="https://stackoverflow.com/questions/4858100/how-to-list-imported-modules">StackOverflow</a>, here is a simple function that lists 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 loaded package (that have a <code>__version__</code> attribute, which is
...@@ -147,9 +236,9 @@ zlib 1.0 ...@@ -147,9 +236,9 @@ zlib 1.0
</div> </div>
</div> </div>
<div id="outline-container-org366ec78" class="outline-3"> <div id="outline-container-org8cd9f14" class="outline-3">
<h3 id="org366ec78">Setting up an environment with pip</h3> <h3 id="org8cd9f14">Setting up an environment with pip</h3>
<div class="outline-text-3" id="text-org366ec78"> <div class="outline-text-3" id="text-org8cd9f14">
<p> <p>
The easiest way to go is as follows: The easiest way to go is as follows:
</p> </p>
...@@ -167,9 +256,9 @@ dynamic libraries that are wrapped by Python. ...@@ -167,9 +256,9 @@ dynamic libraries that are wrapped by Python.
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-org7b419ec" class="outline-2"> <div id="outline-container-org2582136" class="outline-2">
<h2 id="org7b419ec">Getting information about R libraries</h2> <h2 id="org2582136">Getting information about R libraries</h2>
<div class="outline-text-2" id="text-org7b419ec"> <div class="outline-text-2" id="text-org2582136">
<p> <p>
The best way seems to be to rely on the <code>devtools</code> package. The best way seems to be to rely on the <code>devtools</code> package.
</p> </p>
......
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