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Documentation
=============
This is the documentation for the [MATLAB](https://github.com/RascalSoftware/RAT) and [Python](https://github.com/RascalSoftware/python-RAT) versions of the RAT project.
This is the documentation for the [MATLAB](https://github.com/RascalSoftware/RAT) and [Python](https://github.com/RascalSoftware/python-RAT) versions of the RAT project. The installation instruction provided here, assumes [conda](https://docs.conda.io/) is used to manage python packages, please adapt as needed for a different package manager.

Build docs
----------
The documentation should be built using the provided Sphinx make file. The reStructuredText source is in the source
folder while the build will be placed in a build folder. The build requires a python executable and the python packages
in the requirements.txt.
in the requirements.txt. You need MATLAB version and python version or RAT software installed in your system.

conda create -n RAT python=3.9
conda activate RAT
pip install -r requirements.txt
```bash
conda create -n RAT python=3.9
conda activate RAT
pip install -r requirements.txt
```

Download the appropriate version of RAT from the GitHub [release](https://github.com/RascalSoftware/RAT/releases) page, and unzip the contents into a folder called API (This folder should be in the root directory). For example on a Linux machine, the nightly can be downloaded as shown
You also must have `pandoc` installed to build the Python example Jupiter notebooks. See the installation instructions [here](https://pandoc.org/installing.html). If not previously installed system-wide, install [pandoc](https://pandoc.org/) using [conda](https://docs.conda.io/) as described in their [installation manual](https://pandoc.org/installing.html#conda-forge)
depending on [conda](https://docs.conda.io/) flavour you are using.

If you do not have RAT code on your machine, download the appropriate version of RAT from the GitHub [release](https://github.com/RascalSoftware/RAT/releases) page, and unzip the contents into a folder called API (This folder should be located within RAT-documentation directory, alongside the **source** folder and main `make.bat` file (see below)). For example on a Linux machine, the nightly can be downloaded as shown:

```bash
cd path_to_rat_docs_folder
wget https://github.com/RascalSoftware/RAT/releases/download/nightly/Linux.zip
unzip Linux.zip -d API/
```

Where `path_to_rat_docs_folder` is the location where documentation is cloned or unpacked.
If RAT is already present, you may create symbolic link to the existing` RAT` directory, e.g.:

for Windows:

cd path_to_rat_docs_folder
mklink /j API path_to_matlab_rat_folder

for linux/macOS:

You also must have `pandoc` installed to build the Python example Jupyter notebooks. See the installation instructions [here](https://pandoc.org/installing.html).
```bash
cd path_to_rat_docs_folder
ln -s path_to_matlab_rat_folder API
```

Where `path_to_rat_docs_folder` is the path to the RAT documentation repository and `path_to_matlab_rat_folder` is the path to the downloaded MATLAB RAT release

[Python RAT API](https://github.com/RascalSoftware/python-RAT) should be installed on the same python virtual environment created earlier. Build process adds modules necessary for generating python documentation to the python modules search path. Look at [Python RAT repository](https://github.com/RascalSoftware/python-RAT/blob/main/README.md) for more information on how to build python API.

To build the HTML docs, type the following into a terminal with access to the Python executable:

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