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module2/ressources/jupyter.html
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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="#orgf3b7782">Additional Jupyter resources or tricks</a> <li style="margin-bottom:0;"><a href="#orgacd419d">Additional Jupyter resources or tricks</a>
<ul style="margin:0 0;"> <ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orgfb5fa97">Tips and tricks</a></li> <li style="margin-bottom:0;"><a href="#orgc5dc2d3">Tips and tricks</a></li>
<li style="margin-bottom:0;"><a href="#org38d49d6">Running R and Python in the same notebook</a></li> <li style="margin-bottom:0;"><a href="#org9541939">Running R and Python in the same notebook</a></li>
<li style="margin-bottom:0;"><a href="#org1344be3">Exporting a notebook</a></li> <li style="margin-bottom:0;"><a href="#org4455d02">Exporting a notebook</a></li>
</ul> </ul>
</li> </li>
<li style="margin-bottom:0;"><a href="#org98dba69">Installing Jupyter on your own machine</a> <li style="margin-bottom:0;"><a href="#orga99785c">Installing Jupyter on your own machine</a>
<ul style="margin:0 0;"> <ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orgded5168">Installing jupyter</a></li> <li style="margin-bottom:0;"><a href="#org1bef8c0">Installing jupyter</a></li>
<li style="margin-bottom:0;"><a href="#orga71105f">Using R</a></li> <li style="margin-bottom:0;"><a href="#orgd85230e">Using R</a></li>
<li style="margin-bottom:0;"><a href="#org2babeac">Exporting your notebooks with latex</a></li> <li style="margin-bottom:0;"><a href="#orge05b608">Exporting your notebooks with latex</a></li>
<li style="margin-bottom:0;"><a href="#org5699094">Interacting with gitlab</a></li> <li style="margin-bottom:0;"><a href="#orgd9d1407">Interacting with GitLab</a></li>
<li style="margin-bottom:0;"><a href="#org20763cb">Interesting extensions to improve notebook readability</a></li> <li style="margin-bottom:0;"><a href="#orgcdb47ae">Interesting extensions to improve notebook readability</a></li>
</ul> </ul>
</li> </li>
<li style="margin-bottom:0;"><a href="#org1e7464c">Installing JupyterHub&#xa0;&#xa0;&#xa0;<span class="tag"><span class="Benoit">Benoit</span></span></a></li> <li style="margin-bottom:0;"><a href="#org70343f1">Installing JupyterHub&#xa0;&#xa0;&#xa0;<span class="tag"><span class="Benoit">Benoit</span></span></a></li>
</ul> </ul>
</div> </div>
</div> </div>
<div id="outline-container-orgf3b7782" class="outline-2"> <div id="outline-container-orgacd419d" class="outline-2">
<h2 id="orgf3b7782">Additional Jupyter resources or tricks</h2> <h2 id="orgacd419d">Additional Jupyter resources or tricks</h2>
<div class="outline-text-2" id="text-orgf3b7782"> <div class="outline-text-2" id="text-orgacd419d">
</div> </div>
<div id="outline-container-orgfb5fa97" class="outline-3"> <div id="outline-container-orgc5dc2d3" class="outline-3">
<h3 id="orgfb5fa97">Tips and tricks</h3> <h3 id="orgc5dc2d3">Tips and tricks</h3>
<div class="outline-text-3" id="text-orgfb5fa97"> <div class="outline-text-3" id="text-orgc5dc2d3">
<p> <p>
The following <a href="https://www.dataquest.io/blog/jupyter-notebook-tips-tricks-shortcuts/">webpage</a> lists several Jupyter tricks (in particular, it The following <a href="https://www.dataquest.io/blog/jupyter-notebook-tips-tricks-shortcuts/">webpage</a> lists several Jupyter tricks (in particular, it
illustrates many <code>Ipython magic</code> commands) that should improve your illustrates many <code>Ipython magic</code> commands) that should improve your
...@@ -41,9 +41,9 @@ now). ...@@ -41,9 +41,9 @@ now).
</p> </p>
</div> </div>
</div> </div>
<div id="outline-container-org38d49d6" class="outline-3"> <div id="outline-container-org9541939" class="outline-3">
<h3 id="org38d49d6">Running R and Python in the same notebook</h3> <h3 id="org9541939">Running R and Python in the same notebook</h3>
<div class="outline-text-3" id="text-org38d49d6"> <div class="outline-text-3" id="text-org9541939">
<p> <p>
The best solution to this is to install rpy2. On my machine, I have The best solution to this is to install rpy2. On my machine, I have
installed the <code>python3-rpy2</code> debian package with <code>apt-get install</code>. E.g., installed the <code>python3-rpy2</code> debian package with <code>apt-get install</code>. E.g.,
...@@ -91,9 +91,9 @@ plot(df) ...@@ -91,9 +91,9 @@ plot(df)
</ol> </ol>
</div> </div>
</div> </div>
<div id="outline-container-org1344be3" class="outline-3"> <div id="outline-container-org4455d02" class="outline-3">
<h3 id="org1344be3">Exporting a notebook</h3> <h3 id="org4455d02">Exporting a notebook</h3>
<div class="outline-text-3" id="text-org1344be3"> <div class="outline-text-3" id="text-org4455d02">
<p> <p>
Obviously, you can convert to html or pdf using the using the <code>File &gt; Obviously, you can convert to html or pdf using the using the <code>File &gt;
Download as &gt; HTML</code> (or <code>PDF</code>) menu option. This can also be done from Download as &gt; HTML</code> (or <code>PDF</code>) menu option. This can also be done from
...@@ -120,13 +120,13 @@ taste. ...@@ -120,13 +120,13 @@ taste.
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-org98dba69" class="outline-2"> <div id="outline-container-orga99785c" class="outline-2">
<h2 id="org98dba69">Installing Jupyter on your own machine</h2> <h2 id="orga99785c">Installing Jupyter on your own machine</h2>
<div class="outline-text-2" id="text-org98dba69"> <div class="outline-text-2" id="text-orga99785c">
</div> </div>
<div id="outline-container-orgded5168" class="outline-3"> <div id="outline-container-org1bef8c0" class="outline-3">
<h3 id="orgded5168">Installing jupyter</h3> <h3 id="org1bef8c0">Installing jupyter</h3>
<div class="outline-text-3" id="text-orgded5168"> <div class="outline-text-3" id="text-org1bef8c0">
<p> <p>
Here is what you should install: Here is what you should install:
</p> </p>
...@@ -157,15 +157,15 @@ The ipython notebook can then be run with the following command: ...@@ -157,15 +157,15 @@ The ipython notebook can then be run with the following command:
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-orga71105f" class="outline-3"> <div id="outline-container-orgd85230e" class="outline-3">
<h3 id="orga71105f">Using R</h3> <h3 id="orgd85230e">Using R</h3>
<div class="outline-text-3" id="text-orga71105f"> <div class="outline-text-3" id="text-orgd85230e">
<p> <p>
If you want to use the R kernel in jupyter, follow <a href="https://github.com/IRkernel/IRkernel#installation">these instructions</a>. If you want to use the R kernel in jupyter, follow <a href="https://github.com/IRkernel/IRkernel#installation">these instructions</a>.
</p> </p>
<p> <p>
Alternatively, you can install <code>rpy2</code> (see the <a href="#org38d49d6">Running R and Python in Alternatively, you can install <code>rpy2</code> (see the <a href="#org9541939">Running R and Python in
the same notebook</a> section). the same notebook</a> section).
</p> </p>
<div class="org-src-container"> <div class="org-src-container">
...@@ -174,9 +174,9 @@ the same notebook</a> section). ...@@ -174,9 +174,9 @@ the same notebook</a> section).
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-org2babeac" class="outline-3"> <div id="outline-container-orge05b608" class="outline-3">
<h3 id="org2babeac">Exporting your notebooks with latex</h3> <h3 id="orge05b608">Exporting your notebooks with latex</h3>
<div class="outline-text-3" id="text-org2babeac"> <div class="outline-text-3" id="text-orge05b608">
<p> <p>
Here is what I had to install on my recent debian machine to make sure Here is what I had to install on my recent debian machine to make sure
the notebook export via latex works: the notebook export via latex works:
...@@ -188,9 +188,9 @@ sudo apt-get install texlive-xetex ...@@ -188,9 +188,9 @@ sudo apt-get install texlive-xetex
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-org5699094" class="outline-3"> <div id="outline-container-orgd9d1407" class="outline-3">
<h3 id="org5699094">Interacting with gitlab</h3> <h3 id="orgd9d1407">Interacting with GitLab</h3>
<div class="outline-text-3" id="text-org5699094"> <div class="outline-text-3" id="text-orgd9d1407">
<p> <p>
Here is our <a href="https://github.com/brospars/nb-git">jupyter extension that allows to git push/pull from the Here is our <a href="https://github.com/brospars/nb-git">jupyter extension that allows to git push/pull from the
notebooks</a>: notebooks</a>:
...@@ -202,9 +202,9 @@ jupyter nbextension enable nb-git ...@@ -202,9 +202,9 @@ jupyter nbextension enable nb-git
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-org20763cb" class="outline-3"> <div id="outline-container-orgcdb47ae" class="outline-3">
<h3 id="org20763cb">Interesting extensions to improve notebook readability</h3> <h3 id="orgcdb47ae">Interesting extensions to improve notebook readability</h3>
<div class="outline-text-3" id="text-org20763cb"> <div class="outline-text-3" id="text-orgcdb47ae">
<p> <p>
Here are two interesting extensions that can improve readability: Here are two interesting extensions that can improve readability:
</p> </p>
...@@ -231,9 +231,9 @@ jupyter-serverextension enable --py hide_code ...@@ -231,9 +231,9 @@ jupyter-serverextension enable --py hide_code
</div> </div>
</div> </div>
</div> </div>
<div id="outline-container-org1e7464c" class="outline-2"> <div id="outline-container-org70343f1" class="outline-2">
<h2 id="org1e7464c">Installing JupyterHub&#xa0;&#xa0;&#xa0;<span class="tag"><span class="Benoit">Benoit</span></span></h2> <h2 id="org70343f1">Installing JupyterHub&#xa0;&#xa0;&#xa0;<span class="tag"><span class="Benoit">Benoit</span></span></h2>
<div class="outline-text-2" id="text-org1e7464c"> <div class="outline-text-2" id="text-org70343f1">
<blockquote> <blockquote>
<p> <p>
Benoit may give a few hints on this. Benoit may give a few hints on this.
......
module2/ressources/jupyter.org
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...@@ -91,7 +91,7 @@ the notebook export via latex works: ...@@ -91,7 +91,7 @@ the notebook export via latex works:
sudo apt-get install wkhtmltopdf sudo apt-get install wkhtmltopdf
sudo apt-get install texlive-xetex sudo apt-get install texlive-xetex
#+end_src #+end_src
** Interacting with gitlab ** Interacting with GitLab
Here is our [[https://github.com/brospars/nb-git][jupyter extension that allows to git push/pull from the Here is our [[https://github.com/brospars/nb-git][jupyter extension that allows to git push/pull from the
notebooks]]: notebooks]]:
#+begin_src shell :results output :exports both #+begin_src shell :results output :exports both
......
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