yun-lung li

I had the same issue when I did not install numpy in advance. I think the root cause is bx-python will skip compilation of bigwig_file module when numpy is absent. This is how I solve the issue in fresh docker:14.04 environment: $ apt-get update $ apt-get install -y python-dev libbz2-dev liblzma-dev python-pip zlib1g-dev $ pip install Cython --install-option="--no-cython-compile" pysam numpy CrossMap $ python /usr/local/bin/CrossMap.py

I have the same issue when I did install numpy in advance. I think the root cause is bx-python will skip compilation of bigwig_file module when numpy is absent. This is how I solve the issue in fresh docker:14.04 environment: $ apt-get update $ apt-get install -y python-dev libbz2-dev liblzma-dev python-pip zlib1g-dev $ pip install Cython --install-option="--no-cython-compile" pysam numpy CrossMap $ python /usr/local/bin/CrossMap.py