diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/best_practices.md b/2022/2022-05-31_git-trilogy-part-1/slides/best_practices.md
index f430fdfa5f9c4916cdf1654684259b260ba89a18..c20cfef1c037bbad180aa782d5351d719b6e26af 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/best_practices.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/best_practices.md
@@ -1,41 +1,15 @@
-# Wrap-up
+# Summary
-* Git makes things separated but interlinked!
- * separation of changes into commits - compare with standard "versioning" of dropbox/onedrive/owncloud or labeling v1.2 manually
- * separation of work into branches - compare with standard work in parallel - making copy of file and renaming, then "putting it together"
- * separation of work into forks - compare with "I will make my own copy of the whole folder"
+GitLab creates a convenient and efficient working environment
+ - merge requests
+ - issues
+ - assignments
+ - much much more...
-<div class="fragment">
-* GitLab creates a convenient working environment
- * merge requests
- * issues
- * assignements
- * and much much more...
-
-
- <div style="position:absolute;left:55%;top:55%">
- <img src="slides/img/fox.png">
- https://pixabay.com/images/id-5236832/
- </div>
-</div>
-
-
-
-
-# Wrap-up
-## Glossary
-* git
-* repository
-* fork
-* commit
-* branch
-* merge
-* merge/pull request
-
-## Best practices
+# Best practices
* Work on your <font color="red">own</font> branch (in your own fork), and **not** on `master` and **not** on `develop`
* Do **not commit** to `master`/`develop`, but **submit a merge request (MR)**
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/branches.md b/2022/2022-05-31_git-trilogy-part-1/slides/branches.md
index 27473e4527951f92405d86b99afa522dd9a1a37a..a13c2376b5076de940438e4cc5b659869d3a79c6 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/branches.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/branches.md
@@ -1,8 +1,8 @@
# New term: <font color="color:red">branch</font>
-* A sequence of commits (changes) is referred to as **branch**.
-* A new branch can be created by __branching off__ from a commit.
-* A **branch** can be understood as a named **version** of your repository.
+* A sequence of commits (changes) is referred to as *branch*.
+* A new branch can be created by *branching off* from a commit on another branch.
+* A *branch* can be understood as a named *version* of your repository.
<div style="position:absolute;left:50%;top:1em">
<img src="slides/img/branch_branch-off_detail.png" class="as-is" height="800px"/>
@@ -14,7 +14,7 @@
Generally, in a repository, there are guidelines for contributing.
-<div class="fragment">
+<br>
A common development scheme is dual with a:
@@ -48,33 +48,39 @@ Best practice is to <font color="red">create a new **branch**!</font>
<img src="slides/img/branch_my-branch.png" height="800em"/>
</div>
-<br>
+<br>
Using branches ensures:
-* your changes are made separately from other changes
-* your version won't be affected by others
-* all related changes are aggregated on one place
+* your changes are made separately from other (unrelated) changes
+* your version will not be affected by other contributors
+* all related changes are aggregated in one place
* work can continue if the development of one feature gets stuck
+<br>
Are you working on more features in parallel?
-<font color="red">Create a new **branch**!</font> for each of them :)
+<font color="red">Create a new **branch**!</font> for each of them!
+
+
+# Quick recap
+What is the difference between a *fork* and a *branch*?
-# Time to practice!
+<div class="fragment">
+<br><br><br>
+<div align="center">
+<img src="slides/img/forking_detail-with-branches.png" height="500em"/>
+</div>
-1. What is the difference between **fork** and **branch**?
- <div class="fragment fade-in-then-out">
- <div style="position:absolute;left:10%;top:8em">
- <img src="slides/img/forking_detail-with-branches.png" height="500em"/>
- </div>
-2. Why is best practice to branch off from `develop`?
-3. Switch between branches
- <div class="fragment fade-in-then-out">
- <div style="position:absolute;left:10%;top:8em">
- <img src="slides/img/branch_GUI_switch.png" height="500em"/>
- </div>
+
+# How to switch between branches?
+
+<div style="position:absolute;left:10%;top:8em">
+<img src="slides/img/branch_GUI_switch.png" height="500em"/>
+</div>
+
+Why is best practice to branch off from `develop`?
\ No newline at end of file
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/commit.md b/2022/2022-05-31_git-trilogy-part-1/slides/commit.md
index e3fdc167a2ba77f061bf64c53da4ad6d9f4a5e22..7c1fd0be48dd30af338ad211b3644b70166540db 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/commit.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/commit.md
@@ -4,17 +4,18 @@
* Every change moves the repository to a new state.
* Every change added to the sequence of changes is called **commit**.
* Every commit has:
- * message - why
- * author - who
- * timestamp - when
- * unique identifier
+ * content - what?
+ * a message - why?
+ * an author - who?
+ * a timestamp - when?
+ * unique identifier - tracking number
<div style="position:absolute;left:60%;top:1em">
<img src="slides/img/commit_history-diagram.png" class="as-is" height="800px"/>
</div>
<div class="fragment">
-Gitlab UI:
+Gitlab:
<div style="position:absolute">
<img src="slides/img/commit_GUI_1.png" class="as-is" height="350px"/>
</div>
@@ -23,9 +24,10 @@ Gitlab UI:
# New term: <font color="color:red">commit</font>
-## Time to practice!
-1. Notice last commit on files
+<img src="slides/img/icon-live-demo.png" height="100px">
+
+1. Notice last commits that modified files/folders
<!-- .element: class="fragment" data-fragment-index="1" -->
1. Review history of your repository
<!-- .element: class="fragment" data-fragment-index="2" -->
@@ -45,10 +47,5 @@ Gitlab UI:
<img src="slides/img/commit_GUI_click-on-commit.png" class="as-is" height="75px"/>
</div>
<div class="fragment fade-in-then-out" data-fragment-index="3">
-<img src="slides/img/commit_changes.png" class="as-is" height="600px"/>
+<img src="slides/img/commit_changes.png" class="as-is" width="90%"/>
</div>
-
-What is this
-
-Notes:
-Congrats! Now you have reviewed recent changes in your repository!
\ No newline at end of file
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/forks.md b/2022/2022-05-31_git-trilogy-part-1/slides/forks.md
index 6246558f2695d77e929501efd5b27059dd015ed7..f958de248538688433e3f2fd35197eeab3fde2a9 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/forks.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/forks.md
@@ -20,18 +20,15 @@
# New term: <font color="color:red">fork</font>
## What is a `fork`?
-- In general, by default you can only **read** files in a repository.
-- In general, by default you **cannot write** changes.
+- In general, by default, you can only **read** files in a repository. You **cannot write**.
<div class="fragment">
<img src="slides/img/forking.png" height="400px">
-- You have to work on your **own copy** of the repository
+- You have to work on your **own copy** of the repository in order to make changes.
- In other words, you have to work on your own <font color="red">**fork**</font>.
-<br>
-## Why?
@@ -39,7 +36,9 @@
Browse to the original repository and click on the button `Fork`:
-<img src="https://docs.gitlab.com/ee/user/project/repository/img/forking_workflow_fork_button_v13_10.png" height="250px">
+<div align="center">
+<img src="https://docs.gitlab.com/ee/user/project/repository/img/forking_workflow_fork_button_v13_10.png" height="150">
+</div>
<br>
@@ -48,19 +47,19 @@ Browse to the original repository and click on the button `Fork`:
## Time to practice!
-1. Fork the practice repository: <br><br>
-TODO<br><br>
+1. Fork the training repository [https://gitlab.lcsb.uni.lu/R3/school/git/basic-practice-pages](https://gitlab.lcsb.uni.lu/R3/school/git/basic-practice-pages)
+
+
+Congrats! Now you have your own **fork**!
-Congrats! Now you have your own **fork**!
+# How to update my fork?
-# How to update my fork? - TODO: move to the end or delete
-\
-As you have your own fork, it will not automatically be updated once the original repository is updated.
+As you have your own copy (fork), it will not automatically be updated once the original repository is updated.
 You have to update it yourself!
<br>
-**More on that later!**
+**More on that later - time permitting**
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/gitlab.md b/2022/2022-05-31_git-trilogy-part-1/slides/gitlab.md
index dc042490d5ed684ae6aa99a720f23b3b451bb8f4..2766afcd85681944c3927a7ee18c8bea05b209cc 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/gitlab.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/gitlab.md
@@ -1,4 +1,5 @@
# Git repository hosting platforms
+
<div style="position:absolute; left:70%">
<img src="https://gitlab.com/gitlab-com/gitlab-artwork/raw/master/logo/logo-extra-whitespace.png" alt="GitLab" style="width: 500px;"/>
</div>
@@ -22,22 +23,15 @@ Another popular platforms:
-# Time to practice!
-
-<img src="slides/img/icon-live-demo.png" height="100px">
+# Login and report and issue
1. Login to [https://gitlab.lcsb.uni.lu](https://gitlab.lcsb.uni.lu)
* use your LUMS credentials
-2. browse the existing repositories
- * Explore ->
- * navigate to the training repository
+2. Browse the existing repositories
+ * Explore and Search
+ * Navigate to the training repository [https://gitlab.lcsb.uni.lu/R3/school/git/basic-practice-pages](https://gitlab.lcsb.uni.lu/R3/school/git/basic-practice-pages)
3. Inspect project/repository folder structure
-4. Discover an issue (see README.md) and report it
+4. Report an issue
-<div class="fragment">
-
-Congrats! You are a **reporter** :)
-</div>
+<img src="slides/img/icon-live-demo.png" height="100px">
-notes:
-- reporter is very important role
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/img/commit_GUI_main.png b/2022/2022-05-31_git-trilogy-part-1/slides/img/commit_GUI_main.png
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deleted file mode 100644
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- id="image927-5"
- x="-825.54236"
- y="203.72882" />
- </g>
-</svg>
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/img/fox.png b/2022/2022-05-31_git-trilogy-part-1/slides/img/fox.png
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diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/img/remote-local_architecture.webp b/2022/2022-05-31_git-trilogy-part-1/slides/img/remote-local_architecture.webp
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diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/index.md b/2022/2022-05-31_git-trilogy-part-1/slides/index.md
index 2e22a1125966dfbf32e38f303cd770d86a2d3c83..1ab581759602271205ba4aa36c5d9b9bf570da82 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/index.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/index.md
@@ -1,4 +1,4 @@
-# Trilogy of Git Part 1
+# R3.school
## May 31st, 2022
@@ -8,12 +8,13 @@
<div style="top: 5em; left: 60%; position: absolute;">
<img src="slides/img/r3-training-logo.png" height="200px">
- <br><br><br>
- <h1>Contribute using Gitlab</h1>
+ <br><br><br><br>
+ <h1>Trilogy of git - Part I</h1>
+ <h2>Contribute using Gitlab</h2>
<br><br><br>
<h4>
- Laurent Heirendt<br><br>
- laurent.heirendt@uni.lu<br><br>
+ Laurent Heirendt, Ph.D.<br>
+ R3 Team - <a href="mailto:lcsb-r3@uni.lu">lcsb-r3@uni.lu</a><br>
<i>Luxembourg Centre for Systems Biomedicine</i>
</h4>
-</div>
+</div>
\ No newline at end of file
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/merge.md b/2022/2022-05-31_git-trilogy-part-1/slides/merge.md
index c6311a79b8f9cfa3886d1b089878343c9a427bd9..e71182f1b6a9c2aa3f6bf26fd01281a7dd538f50 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/merge.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/merge.md
@@ -1,57 +1,41 @@
# New term: <font color="color:red">merge</font>
* You have made changes on your branch
-* Now you want your changes to be reflected on another branch </br>(most probably `develop` or `master`)
+* Now you want your changes to be reflected on another branch </br>(most probably `develop`)
-<div style="position:absolute;left:60%;top:1em">
+<div style="position:absolute;left:70%;top:1em">
<img src="slides/img/branch_merge-detail.png" height="800px" >
</div>
You have to <font color="color:red">merge</font> the branches.
-**Remarks**: merging is directional - *Merge branch A to branch B*
+- Merging is directional - *Merge branch A to branch B*
+- Merging of branches is a process that is initiated via a so called **merge request** (MR):
+- Your peers can comment on your changes in a merge request **review**!
-### The merge is initiated via so called **merge request**
-* *Requesting* someone (from the original repository) to *merge* your changes.
-* *merge request* is commonly abreviated as **MR**
-Your peers can comment on your changes in a merge request **review**!
+# What happened in the background?
-
-# Our state at the moment?
-
-<div style="position:absolute;top:2em" >
+<div style="position:absolute;top:2em" class="fragment fade-in-then-out" data-fragment-index="1">
<img src="slides/img/fork_branch-diagram-after-commit.png" height="600px" >
</div>
+
<div style="position:absolute;top:2em" class="fragment fade-in-then-out" data-fragment-index="1">
<img src="slides/img/fork_branch-diagram-after-commit-with-back-arrow.png" height="600px" >
</div>
-# Time to practice!
+# Merge request (MR)
-* After hitting the Commit button, you get redirected to the submission page for your merge request
-* Please make sure that you see that you are proposing to merge your branch (version) into the develop branch. This is shown at the top of the page:
-<!-- .element: class="fragment" data-fragment-index="1" -->
-* Fill your merge request submission form and select an Assignee.
-<!-- .element: class="fragment" data-fragment-index="3" -->
-* Good practice is to select Delete source branch when merge request is accepted. (Why?)
-<!-- .element: class="fragment" data-fragment-index="4" -->
-* Under Changes tab, you can see your... changes :)
-<!-- .element: class="fragment" data-fragment-index="5" -->
+<img src="slides/img/icon-live-demo.png" height="100px">
+After hitting the *Commit* button, you get redirected to the submission page for your *merge request (MR)*
-<div style="position:absolute;left:30%;top:4em" class="fragment fade-in-then-out" data-fragment-index="1">
-<img src="slides/img/merge_GUI_detail.png" height="720px" >
-</div>
-
-<div style="position:absolute;left:30%;top:6em" class="fragment fade-in-then-out" data-fragment-index="2">
-<img src="slides/img/merge_branch-to-branch.png" height="100px" >
-</div>
+* Propose to merge your branch into the *development branch*. This is shown at the top of the page.
+* Fill your merge request submission form and select an *Assignee*.
+* Under Changes tab, you can see your changes
-<div style="position:absolute;left:5%;top:10em" class="fragment fade-in-then-out" data-fragment-index="5">
-<img src="slides/img/merge_changes.png" height="400px" >
-</div>
+ Good practice is to select *Delete source branch when merge request is accepted*. Why?
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/syncFork.md b/2022/2022-05-31_git-trilogy-part-1/slides/syncFork.md
index 52f36f8a32995f751fe9f2ddb5b6db9148305c61..1b3ef3de4b0d696758d481da41c7ebfd844dc666 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/syncFork.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/syncFork.md
@@ -1,4 +1,19 @@
# Synchronize your fork
-<!-- TODO: do we need this slide? -->
-<!-- Should it contain steps for deleting a branch -->
\ No newline at end of file
+As mentioned earlier, your fork has been created a certain moment in time.
+
+How to keep it updated?
+
+## Easy way
+
+Delete your fork and re-create it!
+
+- Go to `Settings > General`
+- Scroll down to the `Advanced` section and expand it
+- Click on `Delete this project` and follow the on-screen instructions
+
+ Before you do this, please make sure that all your merge requests have been accepted.
+
+## Automatic way
+
+Follow the instructions on the How-To card: [https://howto.lcsb.uni.lu/?contribute:mirror-fork](https://howto.lcsb.uni.lu/?contribute:mirror-fork)
\ No newline at end of file
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/versioning.md b/2022/2022-05-31_git-trilogy-part-1/slides/versioning.md
index 4424fd72665e2b79c3ea9dc044b56c1d7a1b0920..e9fa7c83ed6828ab3904cd847703f25123f34450 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/versioning.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/versioning.md
@@ -1,9 +1,9 @@
-# Using versioning system?
+# Why use a version control system?
+
Basic feature:
-* Ability to recover old versions
+* Ability to recover old versions
-<div class="fragment">
<div style="position:absolute; left:50%">
<img src="slides/img/version-history_OneDrive.png" height="650px">
</div>
@@ -11,20 +11,22 @@ Basic feature:
Common tools you are already using supporting "version control":
- Owncloud
- OneDrive
-- DropBox
- ...
-Its clear **who** changed **which file** and **when** :) Huray!
+From the list of files, it is clear *who* changed which file and *when*.
+
<div class="fragment">
-### But something is missing, right?
-- **What exactly** was changed? (which section or row?)
-- **Why** it was changed?
+But some information is missing:
+- *What exactly* was changed? (which section or row?)
+- *Why* was it changed?
-# Using versioning system?
+
+# Why use a version control system?
+
## Manual file versioning + CHANGELOG
<br>
@@ -73,7 +75,9 @@ note: overhead for doing this manually is huge
# Using versioning system?
-What happens if **3** people contribute?
+
+What happens when **3** people contribute?
+
```
my-document_v01_AK.docx
my-document_v01_AK_BP.docx
@@ -87,14 +91,4 @@ CHANGELOG.txt
<div class="fragment">
-What happens when **10** people contribute?
-```
- _ ._ _ , _ ._
- (_ ' ( ` )_ .__)
- ( ( ( ) `) ) _)
- (__ (_ (_ . _) _) ,__)
- `~~`\ ' . /`~~`
- ; ;
- / \
-_____________/_ __ \_____________
-```
+What happens when **10** people contribute?
\ No newline at end of file
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/web-ide.md b/2022/2022-05-31_git-trilogy-part-1/slides/web-ide.md
index 070d1d378ba410d556d43572e93f3a6ba74a428e..063101298f037b739f1a4ad117aa0dd3613ac5ad 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/web-ide.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/web-ide.md
@@ -1,44 +1,39 @@
-# Time to practice!
+# Workflow - Web IDE
+
To change content of a file:
+* Browse to *your fork*
* Open Web IDE
<!-- .element: class="fragment" data-fragment-index="1" -->
-* Select a branch you want to work on
+* Select the development branch
<!-- .element: class="fragment" data-fragment-index="2" -->
* Edit file content
<!-- .element: class="fragment" data-fragment-index="3" -->
* Commit
<!-- .element: class="fragment" data-fragment-index="4" -->
- * Hit Commit
- * Select **Create a new branch** and type your branch name
- * Leave the **Start a new merge request** checked
- * Hit Commit
+ * Click Commit
+ * Select **Create a new branch**
+ * Type your branch name (optional, but recommended)
+ * Check **Start a new merge request**
+ * Click Commit
-<div style="position:absolute;left:40%;top:1em" class="fragment fade-in-then-out" data-fragment-index="1">
-<img src="slides/img/commit_GUI_web-ide.png" height="600px" >
+<div style="position:absolute;left:30%;top:1em" class="fragment fade-in-then-out" data-fragment-index="1">
+<img src="slides/img/commit_GUI_web-ide.png" width="90%" >
</div>
<div style="position:absolute;left:40%;top:1em" class="fragment fade-in-then-out" data-fragment-index="2">
-<img src="slides/img/web-ide_select-branch.png" height="600px" >
+<img src="slides/img/web-ide_select-branch.png" width="90%" >
</div>
<div style="position:absolute;left:33%;top:1em" class="fragment fade-in-then-out" data-fragment-index="3">
-<img src="slides/img/web-ide_edit-file.png" height="400px" >
+<img src="slides/img/web-ide_edit-file.png" width="90%" >
</div>
<div style="position:absolute;left:50%;top:1em" class="fragment fade-in-then-out" data-fragment-index="4">
-<img src="slides/img/web-ide_commit-button.png" height="200px" >
+<img src="slides/img/web-ide_commit-button.png" width="90%" >
</div>
<div style="position:absolute;left:50%;top:10em" class="fragment fade-in-then-out" data-fragment-index="4">
-<img src="slides/img/web-ide_commit-detail.png" height="400px" >
-</div>
-
-
-
-# What have we done?
-
-<div style="position:absolute;top:2em" class="fragment fade-in-then-out" data-fragment-index="1">
-<img src="slides/img/fork_branch-diagram-after-commit.png" height="600px" >
+<img src="slides/img/web-ide_commit-detail.png" width="90%" >
</div>
diff --git a/2022/2022-05-31_git-trilogy-part-1/slides/what_is_git.md b/2022/2022-05-31_git-trilogy-part-1/slides/what_is_git.md
index e6c92a3fdfda2ffb813f9f2d9ab256133c3e5e48..a28044617a900af92461e7d1133c68198b99b513 100644
--- a/2022/2022-05-31_git-trilogy-part-1/slides/what_is_git.md
+++ b/2022/2022-05-31_git-trilogy-part-1/slides/what_is_git.md
@@ -4,17 +4,14 @@
Designed and implemented in 2005 by **Linus Torvalds**
-<div style="position:relative; left:60%;">
+<div align="center">
<img src="slides/img/linus.jpg">
</div>
-<div style="position:absolute; left:50%;">
[1] *https://en.wikipedia.org/wiki/Git*
-</div>
-<br>
-<div class="fragment">
+
## The inventor of `git`
@@ -24,19 +21,18 @@ Designed and implemented in 2005 by **Linus Torvalds**
`I'm an egotistical bastard, and I name all my projects after myself.
First Linux, now git.`
-Linus Torvald (2007-06-14)
+Linus Torvalds (2007-06-14)
# What is the use of `git`?
-* Ability to recover old versions
-<div style="position:absolute;left:45%;top:75%">
-<img src="slides/img/Git-logo.png">
+<div align="center">
+<img src="slides/img/Git-logo.png" height="120">
</div>
-<div class="fragment">
-
+* Ability to recover old versions
+* No need to fully rewrite text or code; **reuse** and **save time**
* Keep the changes you made over time (**history**) to every single line
* Annotate each change with description
* **Backtrack** (if necessary) and undo unwanted changes
@@ -48,6 +44,6 @@ note:
Other points to mention:
-* comes from SW development domain with >100 of people contributing to one project
+* git stems from SW development domain with >100 of people contributing to one project
* git shall not be considered as a nuisance, but as a tool that should help to track and trace the code.
* git is not to track performance. Not using it shows exactly the opposite.