Fixed lots of plugin errors.
Introduced org.apache.commons.bsf and org.apache.commons.bcel plugins
Renamed org.apache.jakarta.commons.logging to org.apache.commons.logging
Renamed org.apache.jakarta.commons.net to org.apache.commons.net
No longer is a warning given for a plugin that has no runtime and no extensions, but it does have a custom plugin class.
Rename README.txt to README.md
Rename README.txt to README.md
Rename README.txt to README.md