Updated HADDOCK3 installation instructions in tutorials

amjjbonvin · amjjbonvin · commit 20a814c8f02d · 2025-08-27T10:12:06.000+02:00
diff --git a/education/HADDOCK3/HADDOCK3-antibody-antigen/index.md b/education/HADDOCK3/HADDOCK3-antibody-antigen/index.md
@@ -203,8 +203,10 @@ Unziping the file will create the `HADDOCK3-antibody-antigen` directory which sh
 
 In case of a workshop of course, HADDOCK3 will usually have been installed on the system you will be using.
 
-It this is not the case, you will have to install it yourself. To obtain and install HADDOCK3, navigate to [its repository][haddock-repo], fill the
-registration form, and then follow the instructions under the **Local setup (on your own)** section below.
+In case HADDOCK3 is not pre-installed in your system you will have to install it.
+To obtain HADDOCK3, fill the [registration form](https://docs.google.com/forms/d/e/1FAIpQLScDcd0rWtuzJ_4nftkDAHoLVwr1IAVwNJGhbaZdTYZ4vWu25w){:target="_blank"},  navigate to [its repository][haddock-repo]{:target="_blank"}, and then follow the [installation instructions](https://www.bonvinlab.org/haddock3-user-manual/install.html){:target="_blank"}.
+
+In this tutorial we will use the PyMOL molecular visualisation system. If not already installed, download and install PyMOL from [here](https://pymol.org/){:target="_blank"}. You can use your favourite visualisation software instead, but be aware that instructions in this tutorial are provided only for PyMOL.
 
 This tutorial was last tested using HADDOCK3 version 2024.10.0b7. The provided pre-calculated runs were obtained on a Macbook Pro M2 processors with as OS Sequoia 15.3.1.
 
diff --git a/education/HADDOCK3/HADDOCK3-nanobody-antigen/index.md b/education/HADDOCK3/HADDOCK3-nanobody-antigen/index.md
@@ -62,13 +62,11 @@ system. We will also make use of [**PyMOL**][link-pymol]{:target="_blank"} (free
 most operating systems) in order to visualize the input and output data.
 
 We assume that you have a working installation of HADDOCK3 on your system. 
-If not, provided you have a working Python version (3.9 to 3.13), you can install it through
 
-```bash
-pip install haddock3
-```
+In case HADDOCK3 is not pre-installed in your system you will have to install it.
+To obtain HADDOCK3, fill the [registration form](https://docs.google.com/forms/d/e/1FAIpQLScDcd0rWtuzJ_4nftkDAHoLVwr1IAVwNJGhbaZdTYZ4vWu25w){:target="_blank"},  navigate to [its repository][haddock-repo]{:target="_blank"}, and then follow the [installation instructions](https://www.bonvinlab.org/haddock3-user-manual/install.html){:target="_blank"}.
 
-or refer to the [HADDOCK3 installation instructions][installation]{:target="_blank"} for more details.
+In this tutorial we will use the PyMOL molecular visualisation system. If not already installed, download and install PyMOL from [here](https://pymol.org/){:target="_blank"}. You can use your favourite visualisation software instead, but be aware that instructions in this tutorial are provided only for PyMOL.
 
 Further we are providing pre-processed PDB files for docking and analysis (but the
 preprocessing of those files will also be explained in this tutorial). The files have been processed
diff --git a/education/HADDOCK3/HADDOCK3-protein-DNA-basic/index.md b/education/HADDOCK3/HADDOCK3-protein-DNA-basic/index.md
@@ -63,8 +63,11 @@ It is always possible that you have questions or run into problems for which you
 
 ## Software and data setup
 
-For a complete setup of the local version of Haddock3, refer to the [online documentation](https://www.bonvinlab.org/haddock3/){:target="_blank"}.
-Please, familiarise yourself with the sections ['**A brief introduction to HADDOCK3**'](https://www.bonvinlab.org/haddock3/intro.html){:target="_blank"} and ['**Installation**'](https://www.bonvinlab.org/haddock3/INSTALL.html).
+In order to follow this tutorial you will need to work in a Linux terminal. 
+We assume that you have a working installation of HADDOCK3 on your system. 
+
+In case HADDOCK3 is not pre-installed in your system you will have to install it.
+To obtain HADDOCK3, fill the [registration form](https://docs.google.com/forms/d/e/1FAIpQLScDcd0rWtuzJ_4nftkDAHoLVwr1IAVwNJGhbaZdTYZ4vWu25w){:target="_blank"},  navigate to [its repository][haddock-repo]{:target="_blank"}, and then follow the [installation instructions](https://www.bonvinlab.org/haddock3-user-manual/install.html){:target="_blank"}.
 
 In this tutorial we will use the PyMOL molecular visualisation system. If not already installed, download and install PyMOL from [here](https://pymol.org/){:target="_blank"}. You can use your favourite visualisation software instead, but be aware that instructions in this tutorial are provided only for PyMOL.
 
diff --git a/education/HADDOCK3/HADDOCK3-protein-glycan/index.md b/education/HADDOCK3/HADDOCK3-protein-glycan/index.md
@@ -59,7 +59,9 @@ We will also make use of [**PyMOL**][link-pymol] (freely available for
 most operating systems) in order to visualize the input and output data. 
 We will provide you links to download the various required software and data. 
 We assume that you have a working installation of HADDOCK3 on your system. 
-If not, please refer to the [HADDOCK3 installation instructions](https://github.com/haddocking/haddock3/blob/main/docs/INSTALL.md){:target="_blank"}.
+
+In case HADDOCK3 is not pre-installed in your system you will have to install it.
+To obtain HADDOCK3, fill the [registration form](https://docs.google.com/forms/d/e/1FAIpQLScDcd0rWtuzJ_4nftkDAHoLVwr1IAVwNJGhbaZdTYZ4vWu25w){:target="_blank"},  navigate to [its repository][haddock-repo]{:target="_blank"}, and then follow the [installation instructions](https://www.bonvinlab.org/haddock3-user-manual/install.html){:target="_blank"}.
 
 Further we are providing pre-processed PDB files for docking and analysis (but the
 preprocessing of those files will also be explained in this tutorial). 
