*Disclaimer:* The two sections _A simple "/reproducible research/" emacs
*Disclaimer:* The two sections _A simple "/reproducible research/" emacs
configuration_ and _A stub of replicable article_ explain how to set up
configuration_ and _A stub of replicable article_ explain how to set up
emacs/org-mode for this MOOC. *These sections are illustrated in two
emacs/org-mode for this MOOC. These are very important sections in the
out of the [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/aefd774dcd2342c6aa769c87e2d0993a/3][three video tutorials of this sequence]], and* *which you
context of this MOOC. *These sections are illustrated in two
out of the [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/9cfc7500f0ef46d288d2317ec7b037b4][three video tutorials of this sequence]], and* *which you
really should follow carefully*. *Otherwise, you may have trouble doing
really should follow carefully*. *Otherwise, you may have trouble doing
the exercises later on*. Likewise, I strongly encourage you to watch
the exercises later on*. Likewise, I strongly encourage you to watch
the [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/aefd774dcd2342c6aa769c87e2d0993a/3]["emacs and git" video tutorial available at the same place]].
the [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/9cfc7500f0ef46d288d2317ec7b037b4]["emacs and git" video tutorial available at the same place]].
The next section provides information on how to install emacs.
The next section provides information on how to install emacs.
...
@@ -82,8 +83,9 @@ versions:
...
@@ -82,8 +83,9 @@ versions:
- Org-mode 9.1.13
- Org-mode 9.1.13
- ESS 17.11
- ESS 17.11
* A simple "/reproducible research/" emacs configuration
* A simple "/reproducible research/" emacs configuration
This section is illustrated in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/aefd774dcd2342c6aa769c87e2d0993a/3][video tutorial]] (in French). Watching
This section is illustrated in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/9cfc7500f0ef46d288d2317ec7b037b4][video tutorial]] (/"Mise en place
it before following the instructions given in this section may help.
Emacs/Orgmode"/ in French). Watching it before following the
instructions given in this section may help.
Emacs comes with very basic default configuration and it appears like
Emacs comes with very basic default configuration and it appears like
everyone has its own taste. You will for example find [[https://www.emacswiki.org/emacs/StarterKits][here]] several
everyone has its own taste. You will for example find [[https://www.emacswiki.org/emacs/StarterKits][here]] several
...
@@ -158,8 +160,9 @@ backed up in a revision control system like git. We leave it up to set
...
@@ -158,8 +160,9 @@ backed up in a revision control system like git. We leave it up to set
this up but if you have any trouble, feel free to ask on the FUN
this up but if you have any trouble, feel free to ask on the FUN
forums.
forums.
* A stub of replicable article
* A stub of replicable article
This section is illustrated in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/aefd774dcd2342c6aa769c87e2d0993a/3][video tutorial]] (in French). Watching
This section is illustrated in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/9cfc7500f0ef46d288d2317ec7b037b4][video tutorial]] (/"Écrire un article
it before following the instructions given in this section may help.
réplicable avec Emacs/Orgmode"/ in French). Watching it before
following the instructions given in this section may help.
Remember, you need a working LaTeX and R environment. If you can't
Remember, you need a working LaTeX and R environment. If you can't
open a terminal and run the commands =R=, =pdflatex=, and =python=, you will not be
open a terminal and run the commands =R=, =pdflatex=, and =python=, you will not be
...
@@ -229,7 +232,8 @@ feel this is needed, you should follow the instructions from the
...
@@ -229,7 +232,8 @@ feel this is needed, you should follow the instructions from the
official Web page: http://company-mode.github.io/
official Web page: http://company-mode.github.io/
*** Magit
*** Magit
[[https://magit.vc/][Magit]] is an emacs interface for Git. Its usage is briefly illustrated
[[https://magit.vc/][Magit]] is an emacs interface for Git. Its usage is briefly illustrated
in the context of this MOOC in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/aefd774dcd2342c6aa769c87e2d0993a/3][video tutorial]] (in French).
in the context of this MOOC in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/9cfc7500f0ef46d288d2317ec7b037b4][video tutorial]] (/"Utilisation
Emacs/git"/ in French).
It is very powerful and we use it on a daily basis but you should
It is very powerful and we use it on a daily basis but you should
definitely understand what git does behind the scene beforehand. If
definitely understand what git does behind the scene beforehand. If
@@ -19,7 +19,7 @@ is very convenient but in most cases, you will want to have your own
...
@@ -19,7 +19,7 @@ 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 of the repository and you will have to synchronize your
local copy with the remote GitLab one. To propagate your
local copy with the remote GitLab one. To propagate your
modifications, you will obviously have to authenticate yourself on
modifications, you will obviously have to authenticate yourself on
GitLab. How to do this is illustrated in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/f6580ad8e997400faeffe9af4fd37063/2][video tutorial]] (in French).
GitLab. How to do this is illustrated in a [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/7508aece244548349424dfd61ee3ba85][video tutorial]] (in French).
This document describes the software you need to have
This document describes the software you need to have
installed on your machine and how to handle authentication. Please
installed on your machine and how to handle authentication. Please
...
@@ -54,7 +54,7 @@ never asks me for any password anymore and I don't have to remember
...
@@ -54,7 +54,7 @@ never asks me for any password anymore and I don't have to remember
anything).
anything).
** Option 1: HTTPS
** Option 1: HTTPS
*** Configuring your GitLab password
*** Configuring your GitLab password
In this [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/f6580ad8e997400faeffe9af4fd37063/2][video tutorial]] (in French), I explain how to change your
In this [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/7508aece244548349424dfd61ee3ba85][video tutorial]] (in French), I explain how to change your
password on our GitLab.
password on our GitLab.
*** Making sure git remembers your password
*** Making sure git remembers your password
My GitLab id is =3211ac4f2fb71deaeff9252764c368e7=. Say I've configured
My GitLab id is =3211ac4f2fb71deaeff9252764c368e7=. Say I've configured
This document provides information on how to install Rstudio.
This document provides information on how to install Rstudio.
If you have never used git with Rstudio, *we strongly advise that you
If you have never used git with Rstudio, *we strongly advise that you
follow [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/d6b5dbe8add046e4bde324ed3fc936fa/3][our tutorial on using git from Rstudio]]* (in French). Before
follow [[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/d132a854b0464ad29085cedaded23136][our tutorial on using git from Rstudio]]* (/"Rstudio et Gitlab"/ in French). Before
proceeding, make sure you also have followed the *[[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/courseware/66bc811404b8481da5f794de54681c5e/f6580ad8e997400faeffe9af4fd37063/2]["git/GitLab
proceeding, make sure you also have followed the *[[https://www.fun-mooc.fr/courses/course-v1:inria+41016+session01bis/jump_to_id/7508aece244548349424dfd61ee3ba85]["git/GitLab
configuration" tutorial]]* (in French).
configuration" tutorial]]* (in French).
Alternatively, you may want to watch [[https://www.youtube.com/embed/uHYcDQDbMY8][this video]] (in English). If you
Alternatively, you may want to watch [[https://www.youtube.com/embed/uHYcDQDbMY8][this video]] (in English). If you
