From 8857777221f67de9fff6f37115ec7e2e6e8e1a6e Mon Sep 17 00:00:00 2001
From: Dennis Terhorst <terhorstd@users.noreply.github.com>
Date: Fri, 21 Jun 2024 11:49:33 +0200
Subject: [PATCH 1/4] Update and rename readme.org to readme.md

Add the "Try it on EBRAINS" button and fix some links
---
 readme.org => readme.md | 22 +++++++++++++---------
 1 file changed, 13 insertions(+), 9 deletions(-)
 rename readme.org => readme.md (54%)

diff --git a/readme.org b/readme.md
similarity index 54%
rename from readme.org
rename to readme.md
index 1229229..c2010ef 100644
--- a/readme.org
+++ b/readme.md
@@ -1,28 +1,32 @@
-#+title: Readme
-
-* Arbor Tutorial for NestConf
+# Arbor Tutorial for [NEST Conference 2024](https://nest-simulator.org/conference-2024)
 
 This tutorial take you from the bare bones concepts of bio-physically detailled
 cells to a simple network in Arbor. It is meant mainly for self-directed study
 and experimentation with the opportunity to ask questions. If you are tackling
-this on your own (i.e. not during a workshop), please contact us on [[https://app.gitter.im/#/room/#arbor-tutorial:gitter.im][Gitter]].
+this on your own (i.e. not during a workshop), please contact us on [Gitter](https://app.gitter.im/#/room/#arbor-tutorial:gitter.im).
+
+## Getting Started
+
+The easiest way to run this tutorial is installation-free on the EBRAINS platform. You can open an account with your institutional email address for free and then start the tutorial here:
+
+[![](https://nest-simulator.org/TryItOnEBRAINS.png)](https://lab.ebrains.eu/hub/user-redirect/git-pull?repo=https%3A%2F%2Fgithub.com%2Fthorstenhater%2Farbor-tutorial&urlpath=lab%2Ftree%2Farbor-tutorial%2Farbor-tutorial.ipynb&branch=main)
 
-* Getting Started
+Aternatively you can install all dependencies on your own system manually.
 You'll need recent versions of Linux or MacOS, Python3, and possibly a C++ compiler.
 Start by cloning this repository and then open a shell:
 
-#+begin_src bash
+```bash
 python3 -m venv venv
 source venv/bin/activate
 pip3 install arbor numpy seaborn matplotlib networkx jupyter
 jupyter lab
-#+end_src
+```
 
 While your packages are being installed, you can take a look at the introduction
-in ~intro.pdf~. Then, open the ~arbor-tutorial.ipynb~ notebook; everything else
+in <intro.pdf>. Then, open the <arbor-tutorial.ipynb> notebook; everything else
 should follow from there.
 
-* Useful Links
+## Useful Links
 - Source code :: https://github.com/arbor-sim/arbor/
 - Documentation :: https://docs.arbor-sim.org/en/stable/
 - Chat server :: https://app.gitter.im/#/room/#arbor-sim_community:gitter.im

From 4c6efbf7ab6d11a033df7495ad02660dec7f111a Mon Sep 17 00:00:00 2001
From: Dennis Terhorst <terhorstd@users.noreply.github.com>
Date: Fri, 21 Jun 2024 11:51:25 +0200
Subject: [PATCH 2/4] Update kernel in arbor-tutorial.ipynb

---
 arbor-tutorial.ipynb | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/arbor-tutorial.ipynb b/arbor-tutorial.ipynb
index 98a686b..5851476 100644
--- a/arbor-tutorial.ipynb
+++ b/arbor-tutorial.ipynb
@@ -1427,9 +1427,9 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3 (ipykernel)",
+   "display_name": "EBRAINS 24.04",
    "language": "python",
-   "name": "python3"
+   "name": "ebrains-24-04"
   },
   "language_info": {
    "codemirror_mode": {

From b367530eb28f9576e499e64bb54c42da21abd942 Mon Sep 17 00:00:00 2001
From: Dennis Terhorst <terhorstd@users.noreply.github.com>
Date: Fri, 21 Jun 2024 12:08:52 +0200
Subject: [PATCH 3/4] Fix matplotlib inline output

---
 arbor-tutorial.ipynb | 1 +
 1 file changed, 1 insertion(+)

diff --git a/arbor-tutorial.ipynb b/arbor-tutorial.ipynb
index 5851476..2c49f18 100644
--- a/arbor-tutorial.ipynb
+++ b/arbor-tutorial.ipynb
@@ -24,6 +24,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
+    "%matplotlib inline\n",
     "import arbor as A\n",
     "import numpy as np\n",
     "import seaborn as sns\n",

From 306b9e43a4fc54c3dc62cf1f87f357c847b3c24f Mon Sep 17 00:00:00 2001
From: Dennis Terhorst <terhorstd@users.noreply.github.com>
Date: Mon, 24 Jun 2024 15:22:55 +0200
Subject: [PATCH 4/4] Fix kernel name

---
 arbor-tutorial.ipynb | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/arbor-tutorial.ipynb b/arbor-tutorial.ipynb
index 2c49f18..9eb5030 100644
--- a/arbor-tutorial.ipynb
+++ b/arbor-tutorial.ipynb
@@ -1428,9 +1428,9 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "EBRAINS 24.04",
+   "display_name": "EBRAINS-24.04",
    "language": "python",
-   "name": "ebrains-24-04"
+   "name": "ebrains-24.04"
   },
   "language_info": {
    "codemirror_mode": {