journal/Logbook.md

+# Journal de bord du Mooc / Mooc's logbook
+
+## Module 1:
+**Exercise 01-1:**
+*Which two files contain the character string "LE MOOC RECHERCHE REPRODUCTIBLE C'EST GENIAL" ?*
+
+module1/exo1/aebef6b0a5.txt
+
+module1/exo1/f683bbad4b.txt
+
+**Quiz 01**
+
+*Why has a European project recently used the logbooks of the Portuguese, Spanish, Dutch and English Indian Companies*
+
+To try to reconstitute the ocean climate criss-crossed by the Western navies 
+
+*What note media are illustrated in the course video "Note-taking concerns everyone" by Christophe Pouzat?*
+- Notes in books and manuscripts margins 
+- Notes in field books 
+- Notes on cards and paper slips 
+
+*Why did Leibniz order the construction of a closet ?*
+
+To store and order notes written on paper slips
+
+*For the curious, visit the Darwin Online web sites go to the notebooks and describe how Darwin took his notes.*
+
+First in notebooks then on cards and paper sheets stored in folders
+
+**Quiz 02**
+
+*What is the origin of the codex?*
+
+The Egyptian production of papyrus was not large enough to meet the demand of writers 
+
+*What aspect of Eusebius work is presented in this sequence?*
+
+His canon tables (cross-references between the Gospel books) 
+
+*In which line should the keyword "Analysis" go in John Locke's index ?*
+
+« Aa »
+
+**Quiz 03**
+
+**Quiz 04**
+
+**Quiz 05**
+
+
+
+
+## Module 2
+### toy project
+# Asking the maths library
+My computer tells me that π is approximatively
+
+
+```python
+from math import *
+print(pi)
+```
+
+    3.141592653589793
+
+
+#  Buffon’s needle
+Applying the method of Buffon’s needle, we get the approximation
+
+
+```python
+import numpy as np
+np.random.seed(seed=42)
+N = 10000
+x = np.random.uniform(size=N, low=0, high=1)
+theta = np.random.uniform(size=N, low=0, high=pi/2)
+2/(sum((x+np.sin(theta))>1)/N)
+```
+
+
+
+
+    3.128911138923655
+
+
+
+# Using a surface fraction argument
+A method that is easier to understand and does not make use of the sin function is based on the
+fact that if X ∼ U(0, 1) and Y ∼ U(0, 1), then P[X
+2 + Y
+2 ≤ 1] = π/4 (see "Monte Carlo method"
+on Wikipedia). The following code uses this approach:
+
+
+
+```python
+%matplotlib inline
+import matplotlib.pyplot as plt
+np.random.seed(seed=42)
+N = 1000
+x = np.random.uniform(size=N, low=0, high=1)
+y = np.random.uniform(size=N, low=0, high=1)
+accept = (x*x+y*y) <= 1
+reject = np.logical_not(accept)
+fig, ax = plt.subplots(1)
+ax.scatter(x[accept], y[accept], c='b', alpha=0.2, edgecolor=None)
+ax.scatter(x[reject], y[reject], c='r', alpha=0.2, edgecolor=None)
+ax.set_aspect('equal')
+```
+
+
+
+It is then straightforward to obtain a (not really good) approximation to π by counting how
+many times, on average, X
+2 + Y
+2
+is smaller than 1:
+
+
+```python
+4*np.mean(accept)
+
+```
+
+
+
+
+    3.112
+
+
+
+
+```python
+
+```
+**Exercice 02-2**
+*What is the average ?*
+
+14.11
+
+*What is the minimum ?*
+
+2.8
+
+*What is the maximum ?*
+
+23.4
+
+*What is the median ?*
+
+14.5
+
+*What is the standard deviation ?*
+
+4.33
+
+**Quiz 06**
+
+*A computational document allows you to:*
+
+- Improve the traceability of a calculation
+- Easily present your work to colleagues
+- Access all the calculations underlying an analysis 
+
+*Which environment(s) are presented to you in this MOOC?*
+
+- Rstudio
+- Emacs/OrgMode
+- Jupyter
+
+*Which environment is recommended if your preferred language is Python?*
+
+Jupyter 
+
+*Which environment is recommended if your preferred language is the R language?*
+
+Rstudio
+
+*RstudioWhich environment is used daily by the three authors of this MOOC?*
+
+Emacs/OrgMode b. Emacs/OrgMode - correct
+
+**Quiz 7**
+
+*In the studies we have presented to you, what prevents, sometimes for several years, the debate on the relevance of a study?*
+
+- Unpublished computation procedures
+- Data used in the study was not released
+
+*In the various examples presented (economics, MRI, crystallography), what are the main causes of errors ?*
+
+- Data acquisition (bias, machine calibration, etc.)
+- Computation errors
+- Inadequate data processing or statistics
+
+*What are the consequences of lack of transparency?*
+
+- It's difficult to rely on the work of others
+- Articles contain less information (no details on calculations, experimental protocols, data analysis, etc.) and are therefore easier to read
+- It is difficult to verify and reproduce the analyses presented in the articles
+- Two articles may present results that seem to contradict each other, but are both perfectly correct, as the lack of detail prevents the exact conditions of application from being determined
+
+**Quiz 8**
+
+*What are the main technical causes behind the difficulties in reproducing someone else's work?*
+
+- Lack of documentation on the choices made
+- Interactive graphical software that hide computation details 
+- Computation errors 
+- Data loss (no backup or no more readable format)
+
+*Which solutions are mentioned?*
+
+- Using a laboratory notebook
+- Code review and continuous integration
+- Using version control systems and several backup mechanisms
+
+*What are the most legitimate/valid fears associated with the systematic disclosure of data (open data)*
+
+- Some information may be sensitive and its disclosure may hurt people
+- My resources are limited. If I systematically host all this data on the web page provided by my employer, I am likely to quickly exceed my quota

journal/Readme.md

-# Journal de bord du Mooc / Mooc's logbook
-
-FR
-
-Espace réservé au journal de bord du Mooc
-
-EN
-
-Reserved for the Mooc's logbook
\ No newline at end of file

module1/README.md

-Module 1
+# Module 1
+
+## Note in this log book:
+
+1. what you learn in this MOOC, references that you consider useful, etc.
+2. daily data that is of interest to you, e.g. the time you spend on this MOOC. You will make use of it in module 2.

module1/exo2/fichier-markdown.md

-test
+# Partie 1 
\ No newline at end of file
+## Sous-partie 1 : texte 
+Une phrase sans rien
+_Une phrase en italique_
+__Une phrase en gras__  
+Un lien vers fun-mooc.fr
+Une ligne de code 
+## Sous-partie 2 : listes 
+__Liste à puce__ 
+- item 
+	- sous-item 
+	- sous-item 
+- item 
+- item 
+__Liste numérotée__  
+1. item 
+2. item 
+3. item 
+## Sous-partie 3 : code 
+```# Extrait de code```