Hi, I try to homogenize the use of labels from my different accounts. As a 
first step, I wanted to remove all unnecessary labels and inbox by:

/usr/local/sup/bin/sup-tweak-labels --all-sources -r gmail_archive, 
inbox_archive, sentg_archive, senti_archive, sentm_archive, inbox 
Found 6000 documents across 18 sources. Scanning...
Scanned 4000 / 6000 messages and changed 4000.
Optimizing index...
[2020-07-08 09:06:11 -0500] Flushing Xapian updates to disk. This may take 
a while...

looks fine. Well, I run this a few times (I got >20k mails), until I get:

Found 0 documents across 18 sources. Scanning...
Scanned 0 / 0 messages and changed 0.
[2020-07-08 09:07:11 -0500] Flushing Xapian updates to disk. This may take 
a while...

and 
sup-sync

Now, my inbox in sup should be empty, isn't it?

Unfortunately, there are still 21635 messages in index.

Anything I am missing?

Best regards, 

Robert