When using build all for the update site I receive an error message in the log.
The package javax.xml.parsers is accessible from more than one module: , java.xml
To test out where the issue was I created a new workspace, feature, node, and update site. I followed the developer doc and used the node creation wizard. I added added the javax.xml.parsers.SAXParser import to the node model class. I did not add any dependencies to the the project. I still see the issue when building with the update site.