yanocomp.def

BootStrap: library
From: ubuntu:20.04

%post
    # update and install essential dependencies
    apt-get -y update
    apt-get update && apt-get install -y wget git dialog
    
    # download, install, and update miniconda3
    wget https://repo.anaconda.com/miniconda/Miniconda3-py39_4.12.0-Linux-x86_64.sh
    bash Miniconda3-py39_4.12.0-Linux-x86_64.sh -b -f -p /miniconda3/
    rm Miniconda3-py39_4.12.0-Linux-x86_64.sh
    
    # install dependencies via conda
    export PATH="/miniconda3/bin:$PATH"
    git clone https://github.com/bartongroup/yanocomp.git
    cd yanocomp
    conda install -n base -f -c conda-forge -c bioconda pip python>=3.8 numpy scipy pandas>=1.1 statsmodels pomegranate>=0.13.3 joblib=0.17.0 scikit-learn h5py=2.10.0 click
    pip install click_log
    pip install .

%environment
    # set up all essential environment variables
    export LC_ALL=C
    export PATH=/miniconda3/bin:$PATH
    export PYTHONPATH=/miniconda3/lib/python3.9/:$PYTHONPATH

%labels
    Author Bhargava Reddy Morampalli
    Version 0.2
    MyLabel Yanocomp