Enabled the assignment of the variable env via config files

This feature is just an extension of an existent feature. Today the only way to send environment variables to SGE via bob.bio.base is setting the optional argument --environment. This MR allows us to set that via configuration files by adding env=MY_VAR=VALUE.

Before any complains, I can't come up with test case for that one. This is injected directly in the Namespace object (argparse) AND this object is not visible when we I call verify.main().

anyone willing to review this feature?

It's an easy task; one line of code ONLY

Is it possible to provide this as environment instead of env in config files?

For testing, you can create a preprocessor which fails if an environment variable is not available.

Is it possible to provide this as environment instead of env in config files?

No, it's not possible

ah, there's a second point I missed. sorry.

For testing, you can create a preprocessor which fails if an environment variable is not available.

This is a feature that works ONLY with SGE. Hence, this is not tested by our tests

merged

mentioned in commit 75ebdf5b

Thank you that clarifies it now.