I have seen this error many times (for various mako.py files) and it is
often either when the user running it has insufficient privileges or the
file permissions on a folder (could be several directories upstream) or a
file have changed in some way. If you do a 'ps -ef | grep python' do you
see the paster.py process running with your expected user? Do you use sudo
to elevate the privileges when you run it?

I use a 'galaxy' user but I execute run.sh (which I have created a service
script for in /etc/init.d) with sudo while logged in as galaxy. Also you
might want to do an 'ls -l' in the compiled_templates/ directory and look
at the file permissions and file ownership.

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