We are setting up a galaxy instance that will submit jobs to our
cluster. We could not get pbs_python to work so we have added all PBS
logic to the cheetah template wrapper ncbi_blastp_wrapper.xml.
Currently, all jobs are running out of the home directory. We want to
add logic to the wrapper which will get the working directory from the
JobWrapper class and then change to that directory and run from there.
Can anyone help us to access the JobWrapper.working_underscore value? Or
suggest a better way to do this?
Thank you very much,
Ryan S. Johnson, PhD
Center for Advanced Research Computing
P: (650) 430-6194
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