# Installation

## Requirements

- Python >= 3.10
- MongoDB (for subcommands that query/insert data)

## pip

```bash
pip install jasentool
```

## From source

```bash
git clone https://github.com/SMD-Bioinformatics-Lund/jasentool.git
cd jasentool
pip install .
```

## Development install

Install with optional dev dependencies (linting, formatting):

```bash
pip install ".[dev]"
```

## conda

### From PyPI

```bash
conda create -n jasentool python=3.11
conda activate jasentool
pip install jasentool
```

### From source (development)

```bash
git clone https://github.com/SMD-Bioinformatics-Lund/jasentool.git
cd jasentool
conda env create -f environment.yml
conda activate jasentool
```

`environment.yml` installs all dependencies via conda-forge and performs an editable (`-e .`)
pip install of the package automatically.

## Verify installation

```bash
jasentool --help
```