20839: Replace arvados.util.list_all calls throughout

20839: Replace arvados.util.list_all calls throughout

In preparation to deprecate this function. This does leave a couple
calls in arv-docker-migrate19, but that command will also be deprecated
and removed at least as soon as the function.

The changes to the the sdk/cwl/tests/test_submit.py mocks are necessary
because of mechanical differences between list_all and keyset_list_all.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

test fixup

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>