File list (Check if you may need any files):
version.txt
converters\AbstractFileLoader.java
converters\AbstractFileSaver.java
converters\AbstractLoader.java
converters\AbstractSaver.java
AlgVector.java
AllJavadoc.java
tokenizers\AlphabeticTokenizer.java
pmml\Apply.java
converters\ArffLoader.java
converters\ArffSaver.java
Attribute.java
AttributeExpression.java
AttributeLocator.java
AttributeStats.java
neighboursearch\balltrees\BallNode.java
neighboursearch\balltrees\BallSplitter.java
neighboursearch\BallTree.java
neighboursearch\balltrees\BallTreeConstructor.java
converters\BatchConverter.java
BinarySparseInstance.java
neighboursearch\balltrees\BottomUpConstructor.java
pmml\BuiltInArithmetic.java
pmml\BuiltInMath.java
pmml\BuiltInString.java
converters\C45Loader.java
converters\C45Saver.java
Capabilities.java
CapabilitiesHandler.java
tokenizers\CharacterDelimitedTokenizer.java
ChebyshevDistance.java
Check.java
CheckGOE.java
CheckOptionHandler.java
CheckScheme.java
matrix\CholeskyDecomposition.java
ClassDiscovery.java
ClassloaderUtil.java
logging\ConsoleLogger.java
pmml\Constant.java
ContingencyTables.java
converters\ConverterUtils.java
Copyable.java
Copyright.java
neighboursearch\CoverTree.java
converters\CSVLoader.java
converters\CSVSaver.java
converters\DatabaseConnection.java
converters\DatabaseConverter.java
converters\DatabaseLoader.java
converters\DatabaseSaver.java
Debug.java
pmml\DefineFunction.java
pmml\DerivedFieldMetaInfo.java
pmml\Discretize.java
DistanceFunction.java
matrix\DoubleVector.java
Drawable.java
EditDistance.java
matrix\EigenvalueDecomposition.java
Environment.java
EnvironmentHandler.java
EuclideanDistance.java
matrix\ExponentialFormat.java
pmml\Expression.java
FastVector.java
pmml\FieldMetaInfo.java
pmml\FieldRef.java
logging\FileLogger.java
converters\FileSourcedConverter.java
FindWithCapabilities.java
matrix\FlexibleDecimalFormat.java
matrix\FloatingPointFormat.java
pmml\Function.java
GlobalInfoJavadoc.java
converters\IncrementalConverter.java
Instance.java
InstanceComparator.java
Instances.java
matrix\IntVector.java
stemmers\IteratedLovinsStemmer.java
Javadoc.java
Jython.java
JythonObject.java
JythonSerializableObject.java
neighboursearch\KDTree.java
neighboursearch\kdtrees\KDTreeNode.java
neighboursearch\kdtrees\KDTreeNodeSplitter.java
neighboursearch\kdtrees\KMeansInpiredMethod.java
xml\KOML.java
converters\LibSVMLoader.java
converters\LibSVMSaver.java
neighboursearch\LinearNNSearch.java
matrix\LinearRegression.java
ListOptions.java
converters\Loader.java
logging\Logger.java
stemmers\LovinsStemmer.java
matrix\LUDecomposition.java
ManhattanDistance.java