I. No PHYLIP:
- Remove the plugin PHYLIP and restart UGENE.
- Open an alignment.
- Click "Build Tree".
=> The tree dialog appears without a chosen building method. There is a safe point in log: PhyTree Generator is NULL. - Click "Build".
=> UGENE crashes.
II. No External Tools:
- Remove the plugin "External tool support" and restart UGENE.
- Open an alignment.
- Click "Build Tree".
=> The tree dialog appears with a chosen PHYLIP method, but without settings. - Click "Build".
=> UGENE crashes.
The first situation is usual for Ubuntu because you can install UGENE without the package "ugene-non-free".