I am setting up SGE in our galaxy mirror. One problem I have is that I cannot
export environment variables of the specific users running the galaxy service.
On command line, I did this by qsub -V script.sh. or add a line
I tried to change
/lib/galaxy/jobs/runners/sge.py and lib/galaxy/jobs/runners/drmaae.py
by adding a line
sge_template = """#!/bin/sh
#$ -S /bin/sh
but this did not help.
Any idea is very appreciated!
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