Re-enable coverage tracking for src/Command/*

[cweagans]

In the tests, Composer commands are run in the same process as the tests to allow for easy debugging and coverage reporting. That functionality is implemented here: https://github.com/cweagans/composer-patches/blob/main/tests/_support/Helper/Composer.php

However, it does not work at all for the custom commands that are included in this plugin. There is a test that covers composer patches-relock and composer patches-repatch (https://github.com/cweagans/composer-patches/blob/main/tests/acceptance/CommandsCept.php), but if I change the ->runShellCommand() lines to their corresponding ->runComposerCommand() calls, I get all kinds of very strange errors.

I'm confident that those two commands are well tested and testing patches-doctor thoroughly isn't going to be a very straightforward thing. I'm not interested in holding up the 2.0.0 release on fixing that particular issue, but I also don't want to artificially deflate the amount of test coverage that this plugin has. Therefore, I've ignored the entire src/Command directory for coverage tracking. DoctorCommand isn't well tested right now, but I'll accept that.

[stale]

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.