Merge branch 'develop' into 'master'

Regular merge of develop

See merge request !79

2020/2020-06-09_IT101-DM/slides/introduction.md

+../../2020-03-12_IT101-DM/slides/introduction.md
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2020/2020-06-09_IT101-DM/slides/list.json

+../../2020-03-12_IT101-DM/slides/list.json
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2020/2020-06-09_IT101-DM/slides/overview.md

+../../2020-03-12_IT101-DM/slides/overview.md
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2020/2020-06-09_IT101-DM/slides/problem_solving.md

+# Problem solving
+A guide for solving computing issues
+
+1. Express the problem 
+  * Write down what you want to achieve
+2. Search for help 
+  * Read **FAQs**, **help pages** and the **official documentation** well before turning to Google
+  * Use stack exchange, forums and related resources carefully
+3. Ask an expert 
+    * You have to submit the problem in writing
+    * Make the question interesting
+    * If you supply a trivial problem, it will stop answering

2020/2020-06-09_IT101-DM/slides/r3_group.md

+# Responsible and Reproducible Research (R<sup>3</sup>)
+## What is R<sup>3</sup>?
+
+
+A multi-facetted change management
+process built on 3 pillars:
+
+- R3 pathfinder
+
+- R3 school
+
+- R3 accelerator
+
+Common link module: R3 clinic
+
+<div style="top: -1em; left: 50%; position: absolute;">
+    <img src="slides/img/3pillars-full.png">
+</div>
+  
+<br>
+<br>
+<br>
+<br>
+
+<aside class="notes">
+Pathfinder - policies, data management changes<br>
+School - courses, howtos, trainnings<br>
+Accelerator - advanced teams and their boost/support, CI/CD setup<br>
+Clinic - hands-on, meetings in groups, code review + suggestions<br>
+</aside>
+
+## R<sup>3</sup> Training
+  * LCSB's Monthly Data Management and Data Protection training
+  * ELIXIR Luxembourg's trainings <br>
+   https://elixir-luxembourg.org/training
+  * R<sup>3</sup> school Git basics - every 4 months 
+  <aside class="notes">
+    Direct newcommers to this monthly training  
+  </aside>
+
+
+
+# Responsible and Reproducible Research (R<sup>3</sup>)
+<center><img src="slides/img/r3-training-logo.png" height="200px"></center>
+
+Your R<sup>3</sup> contacts:
+<div style="display:block;text-align:center;position:relative">
+<div class="profile-container">
+
+  * Christophe Trefois
+  * <img src="slides/img/R3_profile_pictures/christophe_trefois.png">
+  * R<sup>3</sup> coordination
+
+</div>
+<div class="profile-container">
+
+  * Venkata Satagopam
+  * <img src="slides/img/R3_profile_pictures/venkata_satagopam.png">
+  * R<sup>3</sup> Core
+
+</div>
+<div class="profile-container">
+
+  * Reinhard Schneider
+  * <img src="slides/img/R3_profile_pictures/reinhard_schneider.png">
+  * Head of Bioinformatics Core 
+
+</div>
+<div class="profile-container">
+
+  * Pinar Alper
+  * <img src="slides/img/R3_profile_pictures/pinar_alper.png">
+  * Data steward
+
+</div>
+<div class="profile-container">
+
+  * Yohan Yarosz</li>
+  * <img src="slides/img/R3_profile_pictures/yohan_yarosz.png">
+  * R<sup>3</sup> Core
+
+</div>
+<div class="profile-container">
+
+  * Laurent Heirendt</li>
+  * <img src="slides/img/R3_profile_pictures/laurent_heirendt.png">
+  * Git, CI
+
+</div>
+<div class="profile-container">
+
+  * Wei Gu</li>
+  * <img src="slides/img/R3_profile_pictures/wei_gu.png">
+  * R<sup>3</sup> Core
+
+</div>
+<div class="profile-container">
+
+  * Sarah Peter</li>
+  * <img src="slides/img/R3_profile_pictures/sarah_peter.png">
+  * HPC
+
+</div>
+<div class="profile-container">
+
+  * Vilem Ded</li>
+  * <img src="slides/img/R3_profile_pictures/vilem_ded.png">
+  * Data steward
+  
+</div>
+<div class="profile-container">
+
+  * Noua Toukourou</li>
+  * <img src="slides/img/R3_profile_pictures/noua_toukourou.png">
+  * R<sup>3</sup> Core
+  
+</div>
+<div class="profile-container">
+
+  * Alexey Kolodkin</li>
+  * <img src="slides/img/R3_profile_pictures/alexey_kolodkin.png">
+  * Data steward
+  
+</div>
+<div class="profile-container">
+
+  * Maharshi Vyas</li>
+  * <img src="slides/img/R3_profile_pictures/maharshi_vyas.png">
+  * R<sup>3</sup> Core
+  
+</div>
+
+</div>

2020/2020-06-09_IT101-DM/slides/reproducibility.md

+../../2020-03-12_IT101-DM/slides/reproducibility.md
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2020/2020-06-09_IT101-DM/slides/rudi_balling.jpg

+../../2020-03-12_IT101-DM/slides/img/rudi_balling.jpg
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2020/2020-06-09_IT101-DM/slides/storage_setup.md

+# Storage set-up
+
+* Download Anti-virus software
+* Regualarly update your SW/OS
+* Encrypt movable media
+
+### Passwords
+
+* Strong passwords
+* Password manager
+* Safe password exchange channels
+* Expiration time on password share
+
+### Backup
+  * take care of your own backups!
+  * don't work on your backup copy!
+  * minimum is <b>3-2-1 backup rule</b>
+
+
+<div style="position:absolute;right:10%;top:10%">
+<img src="slides/img/undraw_secure_server_s9u8.png" height="750px">
+</div>
+
+
+
+# Storage set-up
+## Backup - Central IT/LCSB
+<div style="position:relative">
+<img src="slides/img/LCSB_storages_backed-up.png" height="750px">
+</div>
+<div style="position:absolute;left:65%;top:60%">
+
+Server administrators take care of:
+* server backups
+* LCSB OwnCloud backups
+* group/application server backups (not always)
+
+</div>
+
+
+
+# Storage set-up
+## Backup - personal research data
+<div style="position:relative">
+<img src="slides/img/LCSB_storages_backup.png" height="750px">
+</div>
+<div style="position:absolute;left:55%;top:70%">
+
+<font color="red">One version should reside on Atlas!</font>
+
+</div>

2020/2020-06-09_IT101-DM/slides/thanks.md

+../../2020-03-12_IT101-DM/slides/thanks.md
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2020/2020-06-09_IT101-DM/slides/visualization.md

+../../2020-03-12_IT101-DM/slides/visualization.md
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contribute.sh

@@ -32,4 +32,4 @@ fi
 # launch the docker file
 cmd="python contribute.py --date=\"$parameterDate\" --name=\"$parameterName\""
 
-docker run -p $dockerPort:$dockerPort -it -v $(pwd)/:/presentation $dockerImg /bin/bash -c "$cmd"
+docker run -p $dockerPort:$dockerPort --user $(id -u):$(id -g) -it -v $(pwd)/:/presentation $dockerImg /bin/bash -c "$cmd"