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Reworked system_web_app_manager_unittest.cc tests using the TestWebAppRegistryController.

Bug: 1082880,1088399
Change-Id: Ibe566c76b520f0b7d5177059bc0aa847fc20215f
Reviewed-on: https://chromium-review.googlesource.com/c/chromium/src/+/2223978Reviewed-by: Giovanni Ortuño Urquidi <ortuno@chromium.org>
Reviewed-by: Alexey Baskakov <loyso@chromium.org>
Commit-Queue: Lorne Mitchell <lomitch@microsoft.com>
Cr-Commit-Position: refs/heads/master@{#784436}