It usually has through portaudio, which seems to be broken by design
with regards to jack. At least in audacity it only exposes jack ports
and auto connects them to the first two ins and outs when transport is
rolling.
I used to use this workaround: Roll the transport and then press "||"
button. Jack ports will remain exposed so you can connect / disconnect
as you like. Then press "||" again to playback / record.
Regards, Pablo
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