Fixed permalinks for 0.9.3

Author: brianjimenez

tutorials/0.9.3/basics/index.md

@@ -1,5 +1,5 @@
 ---
-permalink: /tutorials/0.9.2/basics
+permalink: /tutorials/0.9.3/basics
 layout: splash
 classes: wide
 title: "LightDock Basics"

tutorials/0.9.3/dna_docking/index.md

@@ -1,5 +1,5 @@
 ---
-permalink: /tutorials/0.9.2/dna_docking
+permalink: /tutorials/0.9.3/dna_docking
 layout: splash
 classes: wide
 title: "Protein-DNA Docking"
@@ -26,8 +26,8 @@ Create a directory and copy the sample data provided.
 ```bash
 mkdir 1azp
 cd 1azp
-curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.2/dna_docking/data/1AZP_A.pdb
-curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.2/dna_docking/data/1AZP_B.pdb
+curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.3/dna_docking/data/1AZP_A.pdb
+curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.3/dna_docking/data/1AZP_B.pdb
 ```
 
 ## 2. Specifying residue restraints
@@ -37,7 +37,7 @@ LightDock is able to use information derived from either experimental informatio
 To do it so, we first need to create a `restraints.list` file. For the sake of simplicity, we will use a list of residue restraints (3) already formatted for you:
 
 ```bash
-curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.2/dna_docking/data/restraints.list
+curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.3/dna_docking/data/restraints.list
 ```
 
 The file `restraints.list` contains three residue restrains on the receptor (protein partner):

tutorials/0.9.3/membrane/index.md

@@ -1,5 +1,5 @@
 ---
-permalink: /tutorials/0.9.2/membrane
+permalink: /tutorials/0.9.3/membrane
 layout: splash
 classes: wide
 title: "Membrane Docking"
@@ -69,12 +69,12 @@ In order to run this tutorial you will need to have the following software insta
 LightDock is distributed as a Python package through the [Python Package Index](https://pypi.org/project/lightdock/) (PyPI) repository.
 
 #### 3.1.1. Command line
-Installing LightDock is as simple as creating a virtual environment for **Python 3.6+** and running `pip` command (make sure your instances of `virtualenv` and `pip` are for Python 3.6+ versions). We will install the version *0.9.0* of LightDock which is the first released version with support for the membrane protocol and execution in [Jupyter Notebooks](https://jupyter.org/) (see next section):
+Installing LightDock is as simple as creating a virtual environment for **Python 3.6+** and running `pip` command (make sure your instances of `virtualenv` and `pip` are for Python 3.6+ versions). We will install the version *0.9.3.post1* of LightDock which is the latest version with support for the membrane protocol and execution in [Jupyter Notebooks](https://jupyter.org/) (see next section):
 
 ```bash
 virtualenv venv
 source venv/bin/activate
-pip install lightdock==0.9.2
+pip install lightdock==0.9.3.post1
 ```
 
 If the installation finished without errors, you should be able to execute LightDock in the terminal:
@@ -86,15 +86,15 @@ lightdock3.py -v
 and to see an output similar to this:
 
 <p class="notice--info">
-lightdock3 0.9.2
+lightdock3 0.9.3.post1
 </p>
 
 #### 3.1.2. Jupyter Notebook and Google Colab
 
 Another option to use LightDock is through [Google Colaboratory](https://colab.research.google.com) ("Colab" for short) which allows you to write and execute Python in the browser using *notebooks*. In case of choosing this option, simply execute in a new notebook in the first cell the following command:
 
 ```
-!pip install lightdock==0.9.2
+!pip install lightdock==0.9.3.post1
 ```
 
 ### 3.2. Installing PDB-Tools

tutorials/0.9.3/restraints/index.md

@@ -1,5 +1,5 @@
 ---
-permalink: /tutorials/0.9.2/restraints
+permalink: /tutorials/0.9.3/restraints
 layout: splash
 classes: wide
 title: "Residue-Restraints Docking"
@@ -16,7 +16,7 @@ title: "Residue-Restraints Docking"
 
 This is a complete example of the LightDock docking protocol to model the [4G6M](https://www.rcsb.org/structure/4g6m) protein complex with the use of **residue restraints**.
 
-**IMPORTANT** Before starting with this tutorial, we advise you to follow the [LightDock basics](/tutorials/0.9.2/basics) and [simple docking](/tutorials/0.9.2/simple_docking) tutorials.
+**IMPORTANT** Before starting with this tutorial, we advise you to follow the [LightDock basics](/tutorials/0.9.3/basics) and [simple docking](/tutorials/0.9.3/simple_docking) tutorials.
 
 
 ## 1. Copying the data
@@ -25,8 +25,8 @@ Create a directory and copy the sample data provided.
 ```bash
 mkdir test
 cd test
-curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.2/restraints/data/4G6M_rec.pdb
-curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.2/restraints/data/4G6M_lig.pdb
+curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.3/restraints/data/4G6M_rec.pdb
+curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.3/restraints/data/4G6M_lig.pdb
 ```
 
 ## 2. Specifying residue restraints
@@ -66,7 +66,7 @@ L B.VAL.70 P
 For the sake of simplicity, we will use a list of residue restraints already formatted:
 
 ```bash
-curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.2/restraints/data/restraints.list
+curl -O https://github.com/raw/lightdock/lightdock.github.io/master/tutorials/0.9.3/restraints/data/restraints.list
 ```
 
 ## 3. Setup

tutorials/0.9.3/rust/index.md

@@ -1,5 +1,5 @@
 ---
-permalink: /tutorials/0.9.2/rust
+permalink: /tutorials/0.9.3/rust
 layout: splash
 classes: wide
 title: "LightDock-Rust"
@@ -8,7 +8,7 @@ title: "LightDock-Rust"
 <center><h1 style="margin-top:40px">LightDock-Rust</h1></center><br>
 
 <center>
-    <img src="/tutorials/0.9.2/rust/rust.png">
+    <img src="/tutorials/0.9.3/rust/rust.png">
 </center>
 
 * table of contents