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bootstrap: Various fixes

Michal Hrusecky requested to merge hotfix/bootstrap into develop

Mainly the first one:

We now have pkglists in subdirectory so they need to be included with appropriate path.

Need that to be able to kreate medkits with lists enabled. Not that well tested, as it is using relative URI and would need to mirror all pkglists somewhere else and replace the keys and resign everything. Testing in HBL should be safe enough.

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