CI: add work-around for Windows Docker issue

[joverlee521]

CI has been regularly failing due to underlying issue with Docker in GitHub windows runners (actions/runner-images#13729). Latest comment shows that they do not have an immediate fix.

Possible solutions

1. Add suggested work-around to run-integration-tests.
2. Skip nextstrain check-setup --set-default for Windows. I'm not sure why this is being tested when all of the previous steps for setting up runtimes skip Windows.

[victorlin]

I'm not sure why this is being tested when all of the previous steps for setting up runtimes skip Windows.

Based on the commit message of 7d2682a, I think the aim is to test as many code paths as possible, even if it skips setting up runtimes or running workflows.

That said, I'd vote for option 2 to skip check-setup (and version --verbose which also uses Docker) for Windows. We could add nextstrain --help so that at least something is covered.

On second thought, I like option 1 as long as the upstream issue stays open and not closed as "won't fix".