Protein Family Alignment Annotation Tool svncode

Added new method to check if residue annotation exists in selected sequence.

Added new dialog to display PLS Module Error messages.

Updated plsmodel jar file

Updated to print usage when args=0

Updated to remove reference to jama.jar file in lib folder.
Added reference to jama.jar file in lib\pls folder.

Removed this jar file since another version of this jar exists lib\pls folder.

Updated with null key exception fix

Updated to fix null key exception and user selection of selected columns checkbox in pls model functionality

Added bug fix - User selection of selected columns checkbox was not considered.

Updated to fix null key exception