aahh, that must be it, thanks Bjoern! I have the symbolic link, but I did not have the 'requirements' section correct. thanks so much for your help, Isabelle On 6/5/14 9:27 AM, "Björn Grüning" <bjoern.gruening@gmail.com> wrote:
Hi Isabelle,
can you show us the "requirements" section from your tool? Also you need to have a symbolic link from tool_dependency_dir/hhsuite/2.0.16/ ponting to tool_dependency_dir/hhsuite/default/
In tool_dependency_dir/hhsuite/default/ should be the env.sh file. If you have the correct "requirements" section in your tool it should work.
Good luck! Bjoern
Am 04.06.2014 01:17, schrieb Isabelle Phan:
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
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