Beginner question, I apologize.

I recently set up a galaxy server for the first time.

The users of this server are installing custom tools of their own creation.
Some of these tools use binaries from fastx_toolkit, and python libs from
biopython. Both of these have been added from tool_shed.

I have not understood yet, how to set the search path for these
dependencies in the custom tools.  I see the env.sh files in the tool_shed
directories, but am now wondering if there is way to specify in the custom
tools' xml files how to invoke the needed env.sh. Or what is the more
proper way to do do this.

Tony Schreiner
Boston College
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