Protein Family Alignment Annotation Tool svncode

No longer needed as all jars are unsigned now and no need to unsign them again

Commiting so I its in the repo, but will delete next as its no longer needed

Contain notes in comments on how to build and deploy as this file is always opened and updated with a new version number and date prior to building

deleting as I have an uncommitted copy of it

this has now become build.xml

small changes

Documents the new build process for mac and win

move to old