Each use of fabric's `run` method is independent so they cannot be chained;
you would either need to prepend the export command to the command that
depends on the fact PYTHONPATH is set (e.g., run(export PYTHONPATH=...;
command that requires given PP) or (better approach) create an env.sh
file in
I just found out the former approach you mentioned. Its now installing
perfectly. The latter approach won't work for a Qiime installation
because its needs PyCogent on its path during the setup.py phase.
Thanks for clarification.
If I finished adding Qiime' dependencies I will put it on
Hi Mattias,
PyCogent is not currently being installed as part of mi-deployment, so the
method for installing it should be added (if you do so, please consider
issuing a pull request on bitbucket so it can be added to the project).
When it comes to composing $PYTHONPATH to include the reference to
