Bootstrap: docker
From: debian:trixie-slim

%files
    fasttree/runtime.py /opt/myst-plugin/runtime.py
    fasttree/engine.py /opt/myst-plugin/engine.py
    fasttree/config.json /opt/myst-plugin/config.json

%post
    set -eu
    export DEBIAN_FRONTEND=noninteractive
    apt-get update
    apt-get install -y --no-install-recommends python3 python3-biopython ca-certificates
    apt-get install -y --no-install-recommends gcc libc6-dev curl
    mkdir -p /opt/fasttree
    curl -fL --retry 3 https://raw.githubusercontent.com/morgannprice/fasttree/a5a2723ea1e64faf3da7ea514521cfa348891add/FastTree.c -o /opt/fasttree/FastTree.c
    echo '975202a6b74c9996af871404ff043bb2152edcbda539035662514bc12d1f3431  /opt/fasttree/FastTree.c' | sha256sum -c -
    gcc -O3 -fopenmp-simd /opt/fasttree/FastTree.c -lm -o /usr/local/bin/FastTree
    dpkg-query -W > /opt/myst-plugin/packages.tsv
    rm -rf /var/lib/apt/lists/*

%environment
    export OMP_NUM_THREADS=1
    export OPENBLAS_NUM_THREADS=1

%runscript
    exec python3 /opt/myst-plugin/runtime.py "$@"

%test
    python3 -c 'from Bio import AlignIO, Phylo, SeqIO'
    test -s /opt/myst-plugin/config.json

%labels
    Author ATGC
    Tool fasttree