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module2/ressources/emacs_orgmode.html
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module2/ressources/gitlab.html
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......@@ -4,24 +4,24 @@
<h2>Table of Contents</h2>
<div id="text-table-of-contents">
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orge3f4bc8">Installing Git</a>
<li style="margin-bottom:0;"><a href="#org3b51ceb">Installing Git</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orgf47f6c9">Linux (debian, ubuntu)</a></li>
<li style="margin-bottom:0;"><a href="#org6c4b10f">Mac OSX and Windows</a></li>
<li style="margin-bottom:0;"><a href="#org00b8ed8">Linux (debian, ubuntu)</a></li>
<li style="margin-bottom:0;"><a href="#org247f959">Mac OSX and Windows</a></li>
</ul>
</li>
<li style="margin-bottom:0;"><a href="#orgca31098">Authenticating on GitLab</a>
<li style="margin-bottom:0;"><a href="#org10e42dd">Authenticating on GitLab</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#org69e4843">Option 1: HTTPS</a>
<li style="margin-bottom:0;"><a href="#orgda58dab">Option 1: HTTPS</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#org4c05db5">Configuring your GitLab password</a></li>
<li style="margin-bottom:0;"><a href="#orgcfbd789">Making sure git remembers your password</a></li>
<li style="margin-bottom:0;"><a href="#org7f96ff9">Configuring your GitLab password</a></li>
<li style="margin-bottom:0;"><a href="#org18555d7">Making sure git remembers your password</a></li>
</ul>
</li>
<li style="margin-bottom:0;"><a href="#orgaa173db">Option 2: SSH</a>
<li style="margin-bottom:0;"><a href="#org367edbb">Option 2: SSH</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#org880f8ce">Installing SSH</a></li>
<li style="margin-bottom:0;"><a href="#org4481e63">Setting up SSH on GitLab</a></li>
<li style="margin-bottom:0;"><a href="#orge10264b">Installing SSH</a></li>
<li style="margin-bottom:0;"><a href="#orgac5801f">Setting up SSH on GitLab</a></li>
</ul>
</li>
</ul>
......@@ -47,7 +47,7 @@ is very convenient but in most cases, you will want to have your own
local copy of the repository and you will have to synchronize your
local copy with the remote GitLab one. To propagate your
modifications, you will obviously have to authenticate yourself on
GitLab. How to do this is illustrated in a <a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/f6580ad8e997400faeffe9af4fd37063/2">video tutorial</a> (in French).
GitLab. How to do this is illustrated in a <a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/7508aece244548349424dfd61ee3ba85">video tutorial</a> (in French).
</p>
<p>
......@@ -56,13 +56,13 @@ installed on your machine and how to handle authentication. Please
read these instructions carefully.
</p>
<div id="outline-container-orge3f4bc8" class="outline-2">
<h2 id="orge3f4bc8">Installing Git</h2>
<div class="outline-text-2" id="text-orge3f4bc8">
<div id="outline-container-org3b51ceb" class="outline-2">
<h2 id="org3b51ceb">Installing Git</h2>
<div class="outline-text-2" id="text-org3b51ceb">
</div>
<div id="outline-container-orgf47f6c9" class="outline-3">
<h3 id="orgf47f6c9">Linux (debian, ubuntu)</h3>
<div class="outline-text-3" id="text-orgf47f6c9">
<div id="outline-container-org00b8ed8" class="outline-3">
<h3 id="org00b8ed8">Linux (debian, ubuntu)</h3>
<div class="outline-text-3" id="text-org00b8ed8">
<p>
We provide here only instructions for debian-based distributions. Feel
free to contribute to this document to provide up-to-date information
......@@ -78,9 +78,9 @@ Run (as root):
</div>
</div>
</div>
<div id="outline-container-org6c4b10f" class="outline-3">
<h3 id="org6c4b10f">Mac OSX and Windows</h3>
<div class="outline-text-3" id="text-org6c4b10f">
<div id="outline-container-org247f959" class="outline-3">
<h3 id="org247f959">Mac OSX and Windows</h3>
<div class="outline-text-3" id="text-org247f959">
<ul class="org-ul">
<li style="margin-bottom:0;">Download and install Git from the <a href="https://git-scm.com/downloads">Git website</a>.</li>
<li style="margin-bottom:0;">Optional Git clients (should not be needed if you work within
......@@ -100,9 +100,9 @@ Rstudio):
</div>
</div>
</div>
<div id="outline-container-orgca31098" class="outline-2">
<h2 id="orgca31098">Authenticating on GitLab</h2>
<div class="outline-text-2" id="text-orgca31098">
<div id="outline-container-org10e42dd" class="outline-2">
<h2 id="org10e42dd">Authenticating on GitLab</h2>
<div class="outline-text-2" id="text-org10e42dd">
<p>
There are two ways of authenticating and synchronizing your local
repository with GitLab: through HTTPS or through SSH. The first one
......@@ -113,22 +113,22 @@ never asks me for any password anymore and I don't have to remember
anything).
</p>
</div>
<div id="outline-container-org69e4843" class="outline-3">
<h3 id="org69e4843">Option 1: HTTPS</h3>
<div class="outline-text-3" id="text-org69e4843">
<div id="outline-container-orgda58dab" class="outline-3">
<h3 id="orgda58dab">Option 1: HTTPS</h3>
<div class="outline-text-3" id="text-orgda58dab">
</div>
<div id="outline-container-org4c05db5" class="outline-4">
<h4 id="org4c05db5">Configuring your GitLab password</h4>
<div class="outline-text-4" id="text-org4c05db5">
<div id="outline-container-org7f96ff9" class="outline-4">
<h4 id="org7f96ff9">Configuring your GitLab password</h4>
<div class="outline-text-4" id="text-org7f96ff9">
<p>
In this <a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/f6580ad8e997400faeffe9af4fd37063/2">video tutorial</a> (in French), I explain how to change your
In this <a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/7508aece244548349424dfd61ee3ba85">video tutorial</a> (in French), I explain how to change your
password on our GitLab.
</p>
</div>
</div>
<div id="outline-container-orgcfbd789" class="outline-4">
<h4 id="orgcfbd789">Making sure git remembers your password</h4>
<div class="outline-text-4" id="text-orgcfbd789">
<div id="outline-container-org18555d7" class="outline-4">
<h4 id="org18555d7">Making sure git remembers your password</h4>
<div class="outline-text-4" id="text-org18555d7">
<p>
My GitLab id is <code>3211ac4f2fb71deaeff9252764c368e7</code>. Say I've configured
my password to be <code>tototutu</code> (what a weak password&#x2026;) and I want to
......@@ -168,9 +168,9 @@ cached in memory and they will not be asked again before an hour.
</div>
</div>
</div>
<div id="outline-container-orgaa173db" class="outline-3">
<h3 id="orgaa173db">Option 2: SSH</h3>
<div class="outline-text-3" id="text-orgaa173db">
<div id="outline-container-org367edbb" class="outline-3">
<h3 id="org367edbb">Option 2: SSH</h3>
<div class="outline-text-3" id="text-org367edbb">
<p>
My preferred (although more technical) solution is to install SSH, to
create a pair or private/public keys, and to upload your SSH public
......@@ -178,13 +178,13 @@ key on GitLab. This section provides with information on how to do
this.
</p>
</div>
<div id="outline-container-org880f8ce" class="outline-4">
<h4 id="org880f8ce">Installing SSH</h4>
<div class="outline-text-4" id="text-org880f8ce">
<div id="outline-container-orge10264b" class="outline-4">
<h4 id="orge10264b">Installing SSH</h4>
<div class="outline-text-4" id="text-orge10264b">
</div>
<ul class="org-ul">
<li style="margin-bottom:0;"><a id="orga22af4e"></a>Linux (debian, ubuntu)<br />
<div class="outline-text-5" id="text-orga22af4e">
<li style="margin-bottom:0;"><a id="orgabfaf26"></a>Linux (debian, ubuntu)<br />
<div class="outline-text-5" id="text-orgabfaf26">
<p>
We provide here only instructions for debian-based distributions. Feel
free to contribute to this document to provide up-to-date information
......@@ -200,15 +200,15 @@ Run (as root):
</div>
</div>
</li>
<li style="margin-bottom:0;"><a id="orgdea2c28"></a>Mac OSX<br />
<div class="outline-text-5" id="text-orgdea2c28">
<li style="margin-bottom:0;"><a id="org89976c7"></a>Mac OSX<br />
<div class="outline-text-5" id="text-org89976c7">
<p>
You do not have anything to do as it is installed by default.
</p>
</div>
</li>
<li style="margin-bottom:0;"><a id="org991d2af"></a>Windows<br />
<div class="outline-text-5" id="text-org991d2af">
<li style="margin-bottom:0;"><a id="orgb8fc08c"></a>Windows<br />
<div class="outline-text-5" id="text-orgb8fc08c">
<p>
You should install the <a href="https://www.ssh.com/ssh/putty/windows/">Putty</a> client. Once it is installed, look for
the section on <a href="https://www.ssh.com/ssh/putty/windows/puttygen">generating an SSH key</a>.
......@@ -217,9 +217,9 @@ the section on <a href="https://www.ssh.com/ssh/putty/windows/puttygen">generati
</li>
</ul>
</div>
<div id="outline-container-org4481e63" class="outline-4">
<h4 id="org4481e63">Setting up SSH on GitLab</h4>
<div class="outline-text-4" id="text-org4481e63">
<div id="outline-container-orgac5801f" class="outline-4">
<h4 id="orgac5801f">Setting up SSH on GitLab</h4>
<div class="outline-text-4" id="text-orgac5801f">
<p>
Here are <a href="https://docs.gitlab.com/ee/ssh/">all the official explanations on how to set up your SSH key
on GitLab</a>. Alternatively, you may also want to have a look at this
......
module2/ressources/rstudio.html
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......@@ -4,15 +4,15 @@
<h2>Table of Contents</h2>
<div id="text-table-of-contents">
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#orgc8caf11">Installing Rstudio</a>
<li style="margin-bottom:0;"><a href="#org8d005af">Installing Rstudio</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#org8c06a11">Linux (debian, ubuntu)</a>
<li style="margin-bottom:0;"><a href="#orgc6785d0">Linux (debian, ubuntu)</a>
<ul style="margin:0 0;">
<li style="margin-bottom:0;"><a href="#org7e55379">Installing R</a></li>
<li style="margin-bottom:0;"><a href="#orgcce3554">Installing rstudio</a></li>
<li style="margin-bottom:0;"><a href="#org023d7d1">Installing R</a></li>
<li style="margin-bottom:0;"><a href="#org8b528c6">Installing rstudio</a></li>
</ul>
</li>
<li style="margin-bottom:0;"><a href="#org83ecc09">Mac OSX and Windows</a></li>
<li style="margin-bottom:0;"><a href="#org88ad478">Mac OSX and Windows</a></li>
</ul>
</li>
</ul>
......@@ -24,8 +24,8 @@ This document provides information on how to install Rstudio.
<p>
If you have never used git with Rstudio, <b>we strongly advise that you
follow <a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/d6b5dbe8add046e4bde324ed3fc936fa/3">our tutorial on using git from Rstudio</a></b> (in French). Before
proceeding, make sure you also have followed the <b><a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/f6580ad8e997400faeffe9af4fd37063/2">"git/GitLab
follow <a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/d132a854b0464ad29085cedaded23136">our tutorial on using git from Rstudio</a></b> (<i>"Rstudio et Gitlab"</i> in French). Before
proceeding, make sure you also have followed the <b><a href="https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/7508aece244548349424dfd61ee3ba85">"git/GitLab
configuration" tutorial</a></b> (in French).
</p>
......@@ -60,13 +60,13 @@ of these documents:
<li style="margin-bottom:0;"><a href="https://www.fun-mooc.fr/c4x/UPSUD/42001S02/asset/RMarkdown.pdf">Un court document sur R Markdown</a></li>
</ul>
<div id="outline-container-orgc8caf11" class="outline-2">
<h2 id="orgc8caf11">Installing Rstudio</h2>
<div class="outline-text-2" id="text-orgc8caf11">
<div id="outline-container-org8d005af" class="outline-2">
<h2 id="org8d005af">Installing Rstudio</h2>
<div class="outline-text-2" id="text-org8d005af">
</div>
<div id="outline-container-org8c06a11" class="outline-3">
<h3 id="org8c06a11">Linux (debian, ubuntu)</h3>
<div class="outline-text-3" id="text-org8c06a11">
<div id="outline-container-orgc6785d0" class="outline-3">
<h3 id="orgc6785d0">Linux (debian, ubuntu)</h3>
<div class="outline-text-3" id="text-orgc6785d0">
<p>
We provide here only instructions for debian-based distributions. Feel
free to contribute to this document to provide up-to-date information
......@@ -88,9 +88,9 @@ for upgrading&#x2026;
</p>
</div>
<div id="outline-container-org7e55379" class="outline-4">
<h4 id="org7e55379">Installing R</h4>
<div class="outline-text-4" id="text-org7e55379">
<div id="outline-container-org023d7d1" class="outline-4">
<h4 id="org023d7d1">Installing R</h4>
<div class="outline-text-4" id="text-org023d7d1">
<p>
Beforehand, you need to install the R language and convenient packages
by running (as root):
......@@ -123,9 +123,9 @@ to run (as root):
</div>
</div>
<div id="outline-container-orgcce3554" class="outline-4">
<h4 id="orgcce3554">Installing rstudio</h4>
<div class="outline-text-4" id="text-orgcce3554">
<div id="outline-container-org8b528c6" class="outline-4">
<h4 id="org8b528c6">Installing rstudio</h4>
<div class="outline-text-4" id="text-org8b528c6">
<p>
Rstudio is unfortunately not packaged within debian so the easiest is
to download the corresponding debian package on the <a href="https://www.rstudio.com/products/rstudio/download/#download">Rstudio webpage</a>
......@@ -143,9 +143,9 @@ sudo apt-get update ; sudo apt-get -f install <span style="font-weight: bold; fo
</div>
</div>
</div>
<div id="outline-container-org83ecc09" class="outline-3">
<h3 id="org83ecc09">Mac OSX and Windows</h3>
<div class="outline-text-3" id="text-org83ecc09">
<div id="outline-container-org88ad478" class="outline-3">
<h3 id="org88ad478">Mac OSX and Windows</h3>
<div class="outline-text-3" id="text-org88ad478">
<blockquote>
<p>
Some instructions on installing R and knitr must be missing. This
......
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