Add Dockerfile. Update and improve SConsctruct.

Author: 4ment

Dockerfile

@@ -0,0 +1,26 @@
+FROM quay.io/matsengrp/conda-beagle
+
+RUN apt-get update && apt-get install -y --no-install-recommends \
+	cmake \
+	libgsl0-dev \
+	unzip \
+	wget \
+	git
+
+RUN git clone --depth 1 --branch=main https://github.com/phylovi/libsbn /libsbn
+WORKDIR /libsbn
+RUN git submodule update --init --recursive
+
+RUN /opt/conda/bin/conda env create -f environment.yml
+RUN echo "conda activate libsbn" >> $HOME/.bashrc
+RUN /opt/conda/envs/libsbn/bin/pip install phylostan
+
+WORKDIR /
+ENV BEAGLE_PREFIX /usr/local
+ENV LD_LIBRARY_PATH /usr/local/lib
+
+RUN wget https://github.com/4ment/physher/archive/marginal-v1.1.zip && unzip marginal-v1.1.zip
+WORKDIR /physher-marginal-v1.1/Release
+RUN cmake -DBUILD_SHARED_LIBS=OFF .. && make && make install
+
+WORKDIR /data