Fix --root-dir propagation to the standalone server

[simonjgould]

Closes #100 & #96

References

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[oleg-nenashev]

Thanks! Sorry that I missed the PR

[oleg-nenashev]

I will fix the integration tests in the Master branch

[abdusahin]

hi @oleg-nenashev , I'm facing this issue, is there an ETA for failing integration tests ? latest tag 2.6.1 doesn't include the fix.