Koen van der Heide

Actually never mind that, Alignment also implements that interface and might not make the most sense to have setters there as well.

Actually never mind that, Alignment also implements that interface and might not make the most sense to have setters there as well.

Seems the interface (SequenceCollectionI) only has the getters and not the setters for start/end position of the columns so that's why the @Override is missing, I'll add them to the interface.

Seems the interface (SequenceCollectionI) only has the getters and not the setters for start/end position of the columns so that's why the @Override is missing, I'll add them to the interface.

No idea why I did that, fixed now.

No idea why I did that, fixed now.

Slightly confused by which defaults you mean here, getDefault(..) should look for the default jalview configuration of Aptx right? (which would be in resources etc.) Because there's no need to stor...

Slightly confused by which defaults you mean here, getDefault(..) should look for the default jalview configuration of Aptx right? (which would be in resources etc.) Because there's no need to store/look for the default standalone Aptx configuration as Aptx's Configuration object reverts to that anyway if it cannot load in a configuration file.