Installation

For Linux Systems:

  1. Install and setup Miniconda : https://docs.conda.io/en/latest/miniconda.html

  2. Open a terminal

  3. If you are using debian, install libdb-dev : sudo apt install libdb-dev

  4. Install QuShape : conda create -n qushape -c free -c sargueil-citcom qushape

  5. Install IPANEMAP Suite conda create -n ipasuite -c conda-forge -c bioconda -c sargueil-citcom ipasuite

  6. Install VarnaAPI conda activate ipasuite; pip install varnaapi

For MacOS x64 Systems:

Please follow the same steps as for Linux and install gcc via Homebrew before installing the IPANEMAP Suite.

Basic usage

Use qushape :

  1. Open a terminal

  2. Enter qushape conda env : conda activate qushape

  3. Launch QuShape : qushape

Use ipasuite :

  1. Open a terminal

  2. Enter ipasuite conda env : conda activate ipasuite

  3. Launch an IPANEMAP Suite command : ipasuite [command] You can list available command using : ipasuite --help

Update

IPANEMAP Suite conda update -n ipasuite ipasuite -c Sargueil-CiTCoM -c conda-forge -c bioconda

QuShape conda update -n qushape qushape -c Sargueil-CiTCoM -c free

Using a virtual machine (Windows users)

Users of Microsoft Windows can use IPANEMAP Suite through a virtual machine running Linux (e.g. Debian or Ubuntu).