adding new slides for quality talk

2019/2019-06-11_gitTraining/slides/list.json

@@ -6,14 +6,23 @@
         "filename": "overview.md"
     },
     {
-        "filename": "the_terminal.md"
+        "filename": "wheel.md"
     },
     {
-        "filename": "the_editor.md"
+        "filename": "repro_crisis.md"
+    },
+    {
+        "filename": "whyCare.md"
     },
     {
         "filename": "what_is_git.md"
     },
+    {
+        "filename": "the_terminal.md"
+    },
+    {
+        "filename": "the_editor.md"
+    },
     {
         "filename": "installation.md"
     },

2019/2019-06-11_gitTraining/slides/overview.md

 ## Overview
 
-0. The terminal
-1. The editor
-2. What is `git`? What is the use of `git`? <!--(5 min)//-->
-3. Installation of `git`
-4. GitHub and GitLab <!--(5min)//-->
-5. How do I configure `git`? <!--(5min)//-->
-6. Where and how to start? <!--(5min)//-->
-7. What is a fork? <!--(5min)//-->
-8. What are branches?
-9. The 5 essential commands <!--(10 min)//-->
-    * `pull` / `status` / `add` / `commit` / `push`
-10. What are merge/pull requests? <!--(10 min)//-->
-11. How do I synchronize my fork?
-12. Best practices
\ No newline at end of file
+1. **PART I**: Quality of computer code.
+2. **PART II**: Basic git course
+    1. The terminal
+    2. The editor
+    3. What is `git`? What is the use of `git`? <!--(5 min)//-->
+    4. Installation of `git`
+    5. GitHub and GitLab <!--(5min)//-->
+    6. How do I configure `git`? <!--(5min)//-->
+    7. Where and how to start? <!--(5min)//-->
+    8. What is a fork? <!--(5min)//-->
+    9. What are branches?
+    10. The 5 essential commands (`pull` / `status` / `add` / `commit` / `push`)
+    11. What are merge/pull requests? <!--(10 min)//-->
+    12. How do I synchronize my fork?
+    13. Best practices
\ No newline at end of file

2019/2019-06-11_gitTraining/slides/repro_crisis.md

+## Reproducibility crisis
+
+<div align="center">
+<img src="slides/img/reproCrisis.png">
+</div>
+
+*Baker, M., <a href="https://www.nature.com/news/1-500-scientists-lift-the-lid-on-reproducibility-1.19970">1,500 scientists lift the lid on reproducibility</a>, Nature 533, 452–454, 2016. doi:10.1038/533452a*
\ No newline at end of file

2019/2019-06-11_gitTraining/slides/the_terminal.md

+## PART II
+
+<br><br><h1>Basic git course</h1>
+
+
+
 ## The terminal (shell)
 
 **UNIX users (macOS & Linux):**

2019/2019-06-11_gitTraining/slides/wheel.md

+## PART I
+
+<br><br><h1>Quality of computer code.</h1><br>
+<h1>Should you care? What if you didn't?</h1>
+
+
+
+## A true story ...
+
+<div align="center">
+<img src="slides/img/wheel.png">
+</div>
+
+<table style="width:100%">
+  <tr>
+    <th width="33%" align="center">Researcher who cares about<br>quality of his code</th>
+    <th width="33%" align="center">Fellow researcher</th>
+    <th width="33%" align="center">Pi or Manager</th>
+  </tr>
+</table>
\ No newline at end of file

2019/2019-06-11_gitTraining/slides/whyCare.md

+## Why you should care (1)
+
+<div align="center">
+<video width="40%" controls>
+  <source src="slides/img/arianeLaunch.mov" type="video/mp4">
+Your browser does not support the video tag.
+</video>
+</div>
+
+**Aerospace Application**: First launch of Ariane 5, 1996
+
+<font color="#A52A2A"><span class="fas fa-times-circle"></span></font> **Problem**: Rocket exploded shortly after liftoff.
+
+<font color="#FFA500"><span class="fas fa-exclamation-triangle"></span></font> **Root cause of disaster - Software error:**
+
+Horizontal velocity of the rocket exceeded the limits of the 16-bit signed integer value and led to overflow
+Ariane 5 launched with the same software as Ariane 4 - **the code had not been tested**
+
+
+
+## Why you should care (2)
+
+<div align="center">
+<img src="slides/img/therac.png">
+</div>
+
+**Biotechnology Application**: Therac-25 – computer controlled radiation therapy machine
+
+<font color="#A52A2A"><span class="fas fa-times-circle"></span></font> **Problem**: Device malfunctions and delivers a lethal dose of radiation - several patients died.
+
+<font color="#FFA500"><span class="fas fa-exclamation-triangle"></span></font> **Root cause of disaster - Software error:**
+
+**No testing** of software before release, **lack of documentation**