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.gruen...@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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