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Fix jjob testing in related to change if setup_expt.py (#1348)
Resolves GDASApp issue [#1347](#1347) jjob tests pass with this change now, but you have to revert ```test/atm/global-workflow/config.yaml``` to 6fb0a65 since jjob testing will not work without modification until Global Workflow PR [#2992](NOAA-EMC/global-workflow#2992) is merged.
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