[galaxy-dev] galaxy is not sourcing tool environment

I am using env.sh to manage my tool dependencies: # tool_dependency_dir/hhsuite/2.0.16/env.sh export HHPRED_DIR=/opt/galaxy-dist/tool_dependencies/hhsuite/default export HHLIB=${HHPRED_DIR}/lib/hh export PATH=${HHPRED_DIR}/bin:${HHLIB}/scripts:$PATH Galaxy is not sourcing it. I have to manually source it before I restart Galaxy. I am following "Using the env.sh file" and cannot get it to work. What am I missing? Any help greatly appreciated, thanks, Isabelle