1. Installation¶

1.1. Requirements¶

Poppler (https://poppler.freedesktop.org/)

1.2. PM4NGS with Conda/BioConda (Recommended)¶

1.2.1. Conda installation¶

Conda should be already installed and configured using these commands:

localhost:~> wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
localhost:~> sh Miniconda3-latest-Linux-x86_64.sh
localhost:~> conda config --add channels defaults
localhost:~> conda config --add channels bioconda
localhost:~> conda config --add channels conda-forge

1.2.2. PM4NGS conda installation¶

PM4NGS should be installed in a Conda virtual environment named pm4ngs:

localhost:~> conda create -n pm4ngs pm4ngs

1.2.3. PM4NGS conda env activation¶

For activating the conda env:

localhost:~> conda activate pm4ngs
localhost:~> pm4ngs-create -v
PM4NGS version: 0.1.dev0+d20200819

1.3. PM4NGS with Python virtual environment¶

1.3.1. PM4NGS python installation¶

Python 3.6 or above should be installed.

localhost:~> python3 -m venv pm4ngs_venv
localhost:~> source pm4ngs_venv/bin/activate
(pm4ngs_venv) localhost:~> pip install wheel
(pm4ngs_venv) localhost:~> pip install pm4ngs

1.3.2. PM4NGS python env activation¶

For activating the virtual env:

localhost:~> source pm4ngs_venv/bin/activate
(pm4ngs_venv) localhost:~> pm4ngs-create -v
PM4NGS version: 0.0.4