AFAIK the protocol version is only set to 'null' if the layer contains no 
downloaded data. If you did not copy any existing data (not a single 
node/way/relation) from a dowloaded layer to the layer you saved, then the 
file only contains new objects.

New objects have no version tag, neither in v5 nor in v6. In that case, (and 
only that case,) it would be safe to just change the protocol version 
to '0.6' and upload the new data.

If you did copy existing data to the new layer, then (on upload) duplicate 
objects will be created in the database.

-- 
m.v.g.,
Cartinus

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