[Mulgara-svn] r1647 - in trunk/src/jar: content-n3/java/org/mulgara/content/n3 content-rlog/java/org/mulgara/content/rlog content-rlog/java/org/mulgara/krule/rlog/ast/output content-rlog/java/org/mulgara/krule/rlog/rdf query/java/org/jrdf/graph query/java/org/mulgara/connection query/java/org/mulgara/query query/java/org/mulgara/query/filter query/java/org/mulgara/query/filter/arithmetic query/java/org/mulgara/query/filter/value query/java/org/mulgara/query/operation querylang/java/org/mulgara/itql querylang/java/org/mulgara/sparql querylang/java/org/mulgara/sparql/parser querylang/java/org/mulgara/sparql/parser/cst resolver/java/org/mulgara/resolver resolver-gis/java/org/mulgara/resolver/gis resolver-gis/java/org/mulgara/resolver/gis/tools resolver-lucene/java/org/mulgara/resolver/lucene resolver-spi/java/org/mulgara/content resolver-spi/java/org/mulgara/resolver/spi resolver-store/java/org/mulgara/store/statement/xa resolver-store/java/org/mulgara/store/statement/xa11 resolver-url/java/org/mulgara/resolver/url resolver-xsd/java/org/mulgara/resolver/xsd server/java/org/mulgara/server server-rmi/java/org/mulgara/server/rmi store-stringpool/java/org/mulgara/store/stringpool store-stringpool/java/org/mulgara/store/stringpool/xa store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11 store-xa/java/org/mulgara/store/xa tuples/java/org/mulgara/store/tuples util/java/org/mulgara/util util/java/org/mulgara/util/functional web/java/org/mulgara/webquery web/java/org/mulgara/webquery/html

pag at mulgara.org pag at mulgara.org
Thu Mar 26 20:31:10 UTC 2009


Author: pag
Date: 2009-03-26 13:31:07 -0700 (Thu, 26 Mar 2009)
New Revision: 1647

Modified:
   trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3Statements.java
   trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3WriterUnitTest.java
   trunk/src/jar/content-n3/java/org/mulgara/content/n3/Parser.java
   trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatements.java
   trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatementsUnitTest.java
   trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStructure.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomGenerator.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomWriter.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/KruleWriter.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceGenerator.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceWriter.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleGenerator.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleWriter.java
   trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/rdf/URIReference.java
   trunk/src/jar/query/java/org/jrdf/graph/AbstractLiteral.java
   trunk/src/jar/query/java/org/jrdf/graph/Literal.java
   trunk/src/jar/query/java/org/mulgara/connection/Connection.java
   trunk/src/jar/query/java/org/mulgara/connection/DummyConnection.java
   trunk/src/jar/query/java/org/mulgara/connection/SessionConnection.java
   trunk/src/jar/query/java/org/mulgara/query/ConstraintIn.java
   trunk/src/jar/query/java/org/mulgara/query/ConstraintOperation.java
   trunk/src/jar/query/java/org/mulgara/query/GraphAnswer.java
   trunk/src/jar/query/java/org/mulgara/query/GraphVariable.java
   trunk/src/jar/query/java/org/mulgara/query/Query.java
   trunk/src/jar/query/java/org/mulgara/query/filter/AbstractBooleanFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/And.java
   trunk/src/jar/query/java/org/mulgara/query/filter/BinaryComparisonFilter.java
   trunk/src/jar/query/java/org/mulgara/query/filter/BinaryTestFilter.java
   trunk/src/jar/query/java/org/mulgara/query/filter/BoundFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/IsBlankFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/IsIriFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/IsLiteralFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/IsUriFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/LangMatches.java
   trunk/src/jar/query/java/org/mulgara/query/filter/Not.java
   trunk/src/jar/query/java/org/mulgara/query/filter/Or.java
   trunk/src/jar/query/java/org/mulgara/query/filter/RegexFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AbstractNumericOperation.java
   trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AddOperation.java
   trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/DivideOperation.java
   trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MinusOperation.java
   trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MultiplyOperation.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparable.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparableLiteral.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/BlankNodeValue.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/Bool.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/DataTypeFn.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/IRI.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/NumericLiteral.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/SimpleLiteral.java
   trunk/src/jar/query/java/org/mulgara/query/filter/value/Var.java
   trunk/src/jar/query/java/org/mulgara/query/operation/Commit.java
   trunk/src/jar/query/java/org/mulgara/query/operation/CreateGraph.java
   trunk/src/jar/query/java/org/mulgara/query/operation/DataOutputTx.java
   trunk/src/jar/query/java/org/mulgara/query/operation/Load.java
   trunk/src/jar/query/java/org/mulgara/query/operation/NullOp.java
   trunk/src/jar/query/java/org/mulgara/query/operation/Restore.java
   trunk/src/jar/query/java/org/mulgara/query/operation/Rollback.java
   trunk/src/jar/query/java/org/mulgara/query/operation/TxOp.java
   trunk/src/jar/querylang/java/org/mulgara/itql/CommandSplitter.java
   trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterBean.java
   trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterException.java
   trunk/src/jar/querylang/java/org/mulgara/itql/SableCCInterpreter.java
   trunk/src/jar/querylang/java/org/mulgara/itql/TqlInterpreter.java
   trunk/src/jar/querylang/java/org/mulgara/itql/TqlSession.java
   trunk/src/jar/querylang/java/org/mulgara/itql/TqlSessionUI.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/FilterMapper.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/PatternMapper.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/PatternTransformer.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/SparqlInterpreter.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/QueryStructureImpl.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/AnnotatedNode.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicLangMatches.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicSameTerm.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BlankNode.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DecimalLiteral.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DoubleLiteral.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/IntegerLiteral.java
   trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/RDFLiteral.java
   trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/GISDistanceStatements.java
   trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/WritableGISResolver.java
   trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/tools/GEO.java
   trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/FullTextStringIndex.java
   trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/LuceneTransformer.java
   trunk/src/jar/resolver-spi/java/org/mulgara/content/ContentHandler.java
   trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/BackupRestoreSession.java
   trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/ReresolvableResolution.java
   trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/SystemResolver.java
   trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/TuplesContext.java
   trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa/TripleAVLFile.java
   trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/LiteralGraphTuples.java
   trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/XA11StatementStoreImpl.java
   trunk/src/jar/resolver-url/java/org/mulgara/resolver/url/URLStatements.java
   trunk/src/jar/resolver-xsd/java/org/mulgara/resolver/xsd/IntervalConstraint.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/ApplyRulesOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/BackupOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/BuildRulesOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/CreateDefaultGraphOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/CreateGraphOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/Database.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseFactoryInitializer.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseOperationContext.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSecurityAdapterInitializer.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSession.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/InternalResolverFactory.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/ModifyGraphOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/MulgaraTransactionFactory.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/Operation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/QueryOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/RestoreOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/SetGraphOperation.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/StreamContent.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/StringPoolSession.java
   trunk/src/jar/resolver/java/org/mulgara/resolver/SystemGraphSecurityAdapter.java
   trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteSessionWrapperSession.java
   trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteXAResourceWrapperXAResource.java
   trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RmiSessionFactory.java
   trunk/src/jar/server/java/org/mulgara/server/AbstractServer.java
   trunk/src/jar/server/java/org/mulgara/server/ServerInfo.java
   trunk/src/jar/server/java/org/mulgara/server/ServerMBean.java
   trunk/src/jar/server/java/org/mulgara/server/ServiceListingServlet.java
   trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/BlankNodeAllocator.java
   trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/DataStruct.java
   trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/XA11StringPoolImpl.java
   trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/AbstractSPObject.java
   trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/AbstractSPGDateTime.java
   trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDateTimeImpl.java
   trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDecimalImpl.java
   trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDoubleImpl.java
   trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPNumber.java
   trunk/src/jar/store-xa/java/org/mulgara/store/xa/XAStatementStore.java
   trunk/src/jar/tuples/java/org/mulgara/store/tuples/LeftJoin.java
   trunk/src/jar/tuples/java/org/mulgara/store/tuples/PartialColumnComparator.java
   trunk/src/jar/tuples/java/org/mulgara/store/tuples/TuplesOperations.java
   trunk/src/jar/util/java/org/mulgara/util/LongMapper.java
   trunk/src/jar/util/java/org/mulgara/util/QueryParams.java
   trunk/src/jar/util/java/org/mulgara/util/Rmi.java
   trunk/src/jar/util/java/org/mulgara/util/StringUtil.java
   trunk/src/jar/util/java/org/mulgara/util/functional/C.java
   trunk/src/jar/web/java/org/mulgara/webquery/QueryResponsePage.java
   trunk/src/jar/web/java/org/mulgara/webquery/QueryServlet.java
   trunk/src/jar/web/java/org/mulgara/webquery/html/Anchor.java
   trunk/src/jar/web/java/org/mulgara/webquery/html/Break.java
   trunk/src/jar/web/java/org/mulgara/webquery/html/HtmlElement.java
   trunk/src/jar/web/java/org/mulgara/webquery/html/Span.java
   trunk/src/jar/web/java/org/mulgara/webquery/html/TableRow.java
Log:
Fixed javadoc. This included: using absolute packaged references where needed, adding descriptions to param and return statements, updating param names (sometimes the name hand changed, sometimes the params were a totally different list to what was present), and updated possibly special characters to html entities (especially lt and gt)

Modified: trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3Statements.java
===================================================================
--- trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3Statements.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3Statements.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -51,7 +51,7 @@
 import org.mulgara.store.tuples.Tuples;
 
 /**
- * Parses an {@link InputStream} into {@link Statements}.
+ * Parses an {@link java.io.InputStream} into {@link Statements}.
  *
  * This particular implementation is complicated by the need to adapt the Jena
  * N3 <q>push</q> parser to be a <q>pull</q> parser instead.

Modified: trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3WriterUnitTest.java
===================================================================
--- trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3WriterUnitTest.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-n3/java/org/mulgara/content/n3/N3WriterUnitTest.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -49,7 +49,7 @@
  */
 public class N3WriterUnitTest extends TestCase {
   /**
-   * Test {@link N3Wrtier} writing.
+   * Test {@link N3Writer} writing.
    *
    * @throws Exception if there's an error running the test (note that if the test
    *                   merely fails, this should <em>not</em> throw any exception

Modified: trunk/src/jar/content-n3/java/org/mulgara/content/n3/Parser.java
===================================================================
--- trunk/src/jar/content-n3/java/org/mulgara/content/n3/Parser.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-n3/java/org/mulgara/content/n3/Parser.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -70,24 +70,19 @@
 import org.mulgara.util.TempDir;
 
 /**
- * This class parses N3 data. It is implemented as a {@link Runnable} to allow it to be running in
- * the background filling a queue, while a consumer thread drains the queue.
+ * <p>This class parses N3 data. It is implemented as a {@link Runnable} to allow it to be running in
+ * the background filling a queue, while a consumer thread drains the queue.</p>
  *
  * <p>Because ResolverSession (and the underlying StringPoolSession) may not be accessed
  * concurrently from multiple threads, there is some extra complication when creating blank nodes,
  * whereby blank-node instances are created in the parser thread but their id's are allocated later
- * in the app-thread.
+ * in the app-thread.</p>
  *
  * @created 2004-04-02
  * @author <a href="http://staff.pisoftware.com/anewman">Andrew Newman</a>
  * @author <a href="http://staff.pisoftware.com/davidm">David Makepeace</a>
  * @author <a href="http://staff.pisoftware.com/raboczi">Simon Raboczi</a>
- * @version $Revision: 1.8 $
- * @modified $Date: 2005/01/05 04:58:02 $ @maintenanceAuthor $Author: newmana $
- * @company <a href="mailto:info at PIsoftware.com">Plugged In Software</a>
- * @copyright &copy; 2004 <a href="http://www.PIsoftware.com/">Plugged In
- *      Software Pty Ltd</a>
- * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
+ * @copyright &copy; 2004 <a href="http://www.PIsoftware.com/">Plugged In Software Pty Ltd</a>
  */
 class Parser extends Thread implements N3ParserEventHandler {
   /** Logger. */
@@ -156,7 +151,7 @@
   private URI baseURI;
 
   /**
-   * Map of <code>@prefix</code> directives.
+   * Map of <code>prefix</code> directives.
    *
    * Keys are {@link String}s of the form <code>p3p:</code>.
    * Values are also {@link String}s, and of the form

Modified: trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatements.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatements.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatements.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -52,7 +52,7 @@
 import org.mulgara.krule.rlog.parser.URIParseException;
 
 /**
- * Parses an {@link InputStream} into {@link Statements}.
+ * Parses an {@link java.io.InputStream} into {@link Statements}.
  * This parser uses memory and does not stream.
  *
  * @created Feb 24, 2009

Modified: trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatementsUnitTest.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatementsUnitTest.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStatementsUnitTest.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -62,7 +62,7 @@
 
 
   /**
-   * Test {@link N3Statements} parsing the file <tt>test0014.rdf</tt>..
+   * Test {@link RlogStatements} parsing a file.
    *
    * @throws Exception if there's an error running the test (note that if the
    *   test merely fails, this should <em>not</em> throw any exception

Modified: trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStructure.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStructure.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/content/rlog/RlogStructure.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -683,7 +683,7 @@
 
   /**
    * Scans nodes that are URIReferences, and adds them to the list of namespaces if not already there.
-   * @param r A node that may be a reference to be scanned.
+   * @param n A node that may be a reference to be scanned.
    */
   void addToNamespace(Node n) {
     if (!(n instanceof URIReference)) return;

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomGenerator.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomGenerator.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomGenerator.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -59,8 +59,8 @@
 
 
   /**
-   * Creates a new writer for a collection of variables.
-   * @param vars The variables to be written.
+   * Creates a new writer for a collection of axioms.
+   * @param axioms The axioms to be written.
    * @throws LocalizeException If localized nodes could not be accessed.
    */
   public AxiomGenerator(Collection<Axiom> axioms, ResolverSession resolverSession) throws LocalizeException {

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomWriter.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomWriter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/AxiomWriter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -35,8 +35,8 @@
   public Collection<Axiom> axioms;
 
   /**
-   * Creates a new writer for a collection of variables.
-   * @param vars The variables to be written.
+   * Creates a new writer for a collection of axioms.
+   * @param axioms The axioms to be written.
    */
   public AxiomWriter(Collection<Axiom> axioms) {
     this.axioms = axioms;

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/KruleWriter.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/KruleWriter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/KruleWriter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -34,8 +34,7 @@
 
   /**
    * Construct a writer for writing Krule RDF/XML files.
-   * @param varWriter The object to write the variables.
-   * @param ruleWriter The object to write the rules.
+   * @param interpreter The object used for parsing the RLog text.
    */
   public KruleWriter(Interpreter interpreter) {
     this.interpreter = interpreter;

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceGenerator.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceGenerator.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceGenerator.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -41,7 +41,8 @@
 
   /**
    * Creates a new writer for a collection of references.
-   * @param vars The variables to be written.
+   * @param refs The references to be written.
+   * @param resolverSession The session used for globalizing data.
    * @throws LocalizeException If localized nodes could not be accessed.
    */
   public ReferenceGenerator(Collection<URIReference> refs, ResolverSession resolverSession) throws LocalizeException {

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceWriter.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceWriter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/ReferenceWriter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -34,8 +34,8 @@
   public Collection<URIReference> refs;
 
   /**
-   * Creates a new writer for a collection of variables.
-   * @param vars The variables to be written.
+   * Creates a new writer for a collection of references.
+   * @param refs The references to be written.
    */
   public ReferenceWriter(Collection<URIReference> refs) {
     this.refs = refs;

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleGenerator.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleGenerator.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleGenerator.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -287,8 +287,9 @@
 
   /**
    * Prints the body for a rule to a PrintStream.
-   * @param out The PrintStream to send the where clause to.
-   * @param body The where clause that makes up the body of the rule.
+   * @param triples The list of triples to append to.
+   * @param query The node that represents the query that makes up the body.
+   * @param body The list of predicates that makes up the body.
    * @param subs The part of a where clause to be removed from the body.
    * @throws URIParseException If one of the URIs in the constraint expression has an invalid syntax.
    * @throws LocalizeException Unable to localize some of the URIs in the constraints.
@@ -306,7 +307,7 @@
 
   /**
    * Emit the operation for the difference between the body and the subtractions as a set of triples.
-   * @param triples The 
+   * @param triples The list of triples to append to.
    * @param body The main body to be selected (the minuend).
    * @param subs The constraints to be subtracted from the body (the subtrahends).
    * @throws URIParseException The constraints contain URIs that are invalid.
@@ -337,7 +338,7 @@
   /**
    * Adds a list of constraints as the arguments to a single ConstraintConjunction.
    * @param triples The list of triples to add the statements to.
-   * @param conj The node representing the conjunction being emitted.
+   * @param conjNode The node representing the conjunction being emitted.
    * @param conjunction The list of constraints that form the conjunction to be added.
    * @throws URIParseException If one of the URIs in the constraint has an invalid syntax.
    * @throws LocalizeException Unable to localize a URI in the expression.

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleWriter.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleWriter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/ast/output/RuleWriter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -44,8 +44,8 @@
   public Collection<Rule> rules;
 
   /**
-   * Creates a new writer for a collection of variables.
-   * @param vars The variables to be written.
+   * Creates a new writer for a collection of rules.
+   * @param rules The rules to be written.
    */
   public RuleWriter(Collection<Rule> rules) {
     this.rules = rules;

Modified: trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/rdf/URIReference.java
===================================================================
--- trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/rdf/URIReference.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/content-rlog/java/org/mulgara/krule/rlog/rdf/URIReference.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -104,7 +104,7 @@
    * Creates a URIReference. This requires the URI to be pre-built.
    * @param prefix A namespace prefix.
    * @param value The value within the namespace.
-   * @param uri The string for the URI to wrap, and that is represented by prefix:value
+   * @param uriStr The string for the URI to wrap, and that is represented by prefix:value
    * @return A new URIReference.
    */
   public static URIReference create(String prefix, String value, String uriStr) {

Modified: trunk/src/jar/query/java/org/jrdf/graph/AbstractLiteral.java
===================================================================
--- trunk/src/jar/query/java/org/jrdf/graph/AbstractLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/jrdf/graph/AbstractLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -205,10 +205,8 @@
    * Provide a legible representation of a literal, following the N-Triples
    * format defined in
    * <a href="http://www.w3.org/TR/2004/REC-rdf-testcases-20040210/#ntrip_strings">&sect;3.2</a>
-   * of the <a href="http://www.w3.org/">
-   * <acronym title="World Wide Web Consortium">W3C</acronym></a>'s
-   * <a href="http://www.w3.org/TR/2004/REC-rdf-testcases-20040210">RDF Test
-   * Cases</a> Recommendation.
+   * of the <a href="http://www.w3.org/">W3C</a>'s (World Wide Web Consortium)
+   * <a href="http://www.w3.org/TR/2004/REC-rdf-testcases-20040210">RDF Test Cases</a> Recommendation.
    *
    * Well-formed Unicode surrogate pairs in the lexical form are escaped as a
    * single 8-digit hexadecimal <code>\U</code> escape sequence rather than a

Modified: trunk/src/jar/query/java/org/jrdf/graph/Literal.java
===================================================================
--- trunk/src/jar/query/java/org/jrdf/graph/Literal.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/jrdf/graph/Literal.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -134,10 +134,8 @@
    * Provide a legible representation of a literal, following the N-Triples
    * format defined in
    * <a href="http://www.w3.org/TR/2004/REC-rdf-testcases-20040210/#ntrip_strings">&sect;3.2</a>
-   * of the <a href="http://www.w3.org/">
-   * <acronym title="World Wide Web Consortium">W3C</acronym></a>'s
-   * <a href="http://www.w3.org/TR/2004/REC-rdf-testcases-20040210">RDF Test
-   * Cases</a> Recommendation.
+   * of the <a href="http://www.w3.org/">W3C</a>'s (World Wide Web Consortium)
+   * <a href="http://www.w3.org/TR/2004/REC-rdf-testcases-20040210">RDF Test Cases</a> Recommendation.
    *
    * Well-formed Unicode surrogate pairs in the lexical form are escaped as a
    * single 8-digit hexadecimal <code>\U</code> escape sequence rather than a

Modified: trunk/src/jar/query/java/org/mulgara/connection/Connection.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/connection/Connection.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/connection/Connection.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -125,7 +125,7 @@
   /**
    * Starts and commits transactions on this connection, by turning the autocommit
    * flag on and off. 
-   * @param autocommit <code>true</code> if the flag is to be on.
+   * @param autoCommit <code>true</code> if the flag is to be on.
    * @throws QueryException The session could not change state.
    */
   public void setAutoCommit(boolean autoCommit) throws QueryException;
@@ -152,7 +152,7 @@
 
   /**
    * Generic command execution method.
-   * @param The command to execute.
+   * @param cmd The command to execute.
    * @return A status message
    * @throws Exception A general exception catchall
    */

Modified: trunk/src/jar/query/java/org/mulgara/connection/DummyConnection.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/connection/DummyConnection.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/connection/DummyConnection.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -73,7 +73,7 @@
   /**
    * Starts and commits transactions on this connection, by turning the autocommit
    * flag on and off. 
-   * @param autocommit <code>true</code> if the flag is to be on.
+   * @param autoCommit <code>true</code> if the flag is to be on.
    * @throws QueryException The session could not change state.
    */
   public void setAutoCommit(boolean autoCommit) throws QueryException {

Modified: trunk/src/jar/query/java/org/mulgara/connection/SessionConnection.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/connection/SessionConnection.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/connection/SessionConnection.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -165,7 +165,7 @@
   /**
    * Starts and commits transactions on this connection, by turning the autocommit
    * flag on and off. 
-   * @param autocommit <code>true</code> if the flag is to be on.
+   * @param autoCommit <code>true</code> if the flag is to be on.
    * @throws QueryException The session could not change state.
    */
   public void setAutoCommit(boolean autoCommit) throws QueryException {
@@ -246,7 +246,8 @@
   /**
    * Sets the session information for this connection
    * @param session The session to set to.
-   * @param securityDomainURI The security domain to use for the session.
+   * @param securityDomainUri The security domain to use for the session.
+   * @param serverUri The server the session is connected to.
    */
   private void setSession(Session session, URI securityDomainUri, URI serverUri) {
     this.session = session;

Modified: trunk/src/jar/query/java/org/mulgara/query/ConstraintIn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/ConstraintIn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/ConstraintIn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -73,7 +73,9 @@
     return constraint;
   }
 
-  /** {@inheritDoc} */
+  /**
+   * @return The graph described in this constraint
+   */
   public ConstraintElement getModel() {
     return graph;
   }
@@ -85,7 +87,9 @@
   }
 
 
-  /** {@inheritDoc} */
+  /**
+   * @return <code>true</code> If the constraint wrapped by this constraint is a ConstraintIs.
+   */
   public boolean isInnerConstraintIs() {
     return constraint instanceof ConstraintIs;
   }

Modified: trunk/src/jar/query/java/org/mulgara/query/ConstraintOperation.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/ConstraintOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/ConstraintOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -35,7 +35,7 @@
 
 /**
  * A constraint expression composed of two subexpressions and a dyadic operator.
- * Implements {@link Transformable}.
+ * Can be transformed.
  *
  * @created 2001-08-12
  *

Modified: trunk/src/jar/query/java/org/mulgara/query/GraphAnswer.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/GraphAnswer.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/GraphAnswer.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -62,7 +62,7 @@
 
   /**
    * Constructs a new BooleanAnswer.
-   * @param result The result this answer represents.
+   * @param rawAnswer The result this answer represents.
    */
   public GraphAnswer(Answer rawAnswer) {
     int cols = rawAnswer.getNumberOfVariables();

Modified: trunk/src/jar/query/java/org/mulgara/query/GraphVariable.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/GraphVariable.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/GraphVariable.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -46,7 +46,7 @@
   /**
    * Construct a model from a {@link URL}.
    *
-   * @param uri the {@link URI} of the model to query
+   * @param variable The variable this expression represents.
    * @throws IllegalArgumentException if <var>url</var> is <code>null</code>
    */
   public GraphVariable(Variable variable) {

Modified: trunk/src/jar/query/java/org/mulgara/query/Query.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/Query.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/Query.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -269,7 +269,7 @@
   /**
    * Accessor for the <code>variableList</code> property.
    *
-   * @return a {@link List} containing one or more {@link Variable}s, {@link ContantValue}s,
+   * @return a {@link List} containing one or more {@link Variable}s, {@link ConstantValue}s,
    * {@link Count}s or {@link Subquery}
    */
   public List<SelectElement> getVariableList() {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/AbstractBooleanFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/AbstractBooleanFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/AbstractBooleanFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -33,7 +33,7 @@
 
   /**
    * Create a function for testing a term
-   * @param The term to test
+   * @param operand The term to test
    */
   public AbstractBooleanFn(RDFTerm operand) {
     super(operand);
@@ -41,7 +41,7 @@
   }
 
   /**
-   * @see org.mulgara.query.filter.Filter#test()
+   * @see org.mulgara.query.filter.Filter#test(Context)
    */
   public boolean test(Context context) throws QueryException {
     setCurrentContext(context);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/And.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/And.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/And.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -41,7 +41,7 @@
    * Returns the head of the list ANDed with the product of the remainder of the list.
    * <code>false</code> and Exception is <code>false</code>.
    * <code>true</code> and Exception is Exception.
-   * @see org.mulgara.query.filter.Filter#test()
+   * @see org.mulgara.query.filter.Filter#test(Context)
    */
   boolean testList(Context context, List<Filter> filters) throws QueryException {
     Filter head = filters.get(0);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/BinaryComparisonFilter.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/BinaryComparisonFilter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/BinaryComparisonFilter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -47,7 +47,7 @@
   }
 
   /**
-   * @see org.mulgara.query.filter.Filter#test()
+   * @see org.mulgara.query.filter.Filter#test(Context)
    */
   public boolean test(Context context) throws QueryException {
     setCurrentContext(context);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/BinaryTestFilter.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/BinaryTestFilter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/BinaryTestFilter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -46,7 +46,7 @@
   }
 
   /**
-   * @see org.mulgara.query.filter.Filter#test()
+   * @see org.mulgara.query.filter.Filter#test(Context)
    */
   public boolean test(Context context) throws QueryException {
     setCurrentContext(context);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/BoundFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/BoundFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/BoundFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -30,7 +30,7 @@
 
   /**
    * Create a function for testing a variable
-   * @param The variable to test
+   * @param operand The variable to test
    */
   public BoundFn(Var operand) {
     super(operand);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/IsBlankFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/IsBlankFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/IsBlankFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -29,7 +29,7 @@
 
   /**
    * Create a function for testing a variable
-   * @param The variable to test
+   * @param operand The variable to test
    */
   public IsBlankFn(RDFTerm operand) {
     super(operand);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/IsIriFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/IsIriFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/IsIriFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -29,7 +29,7 @@
 
   /**
    * Create a function for testing a variable
-   * @param The variable to test
+   * @param operand The variable to test
    */
   public IsIriFn(RDFTerm operand) {
     super(operand);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/IsLiteralFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/IsLiteralFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/IsLiteralFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -29,7 +29,7 @@
 
   /**
    * Create a function for testing if a value it a Literal
-   * @param The variable to test
+   * @param operand The variable to test
    */
   public IsLiteralFn(RDFTerm operand) {
     super(operand);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/IsUriFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/IsUriFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/IsUriFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -29,7 +29,7 @@
 
   /**
    * Create a function for testing a variable
-   * @param The variable to test
+   * @param operand The variable to test
    */
   public IsUriFn(RDFTerm operand) {
     super(operand);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/LangMatches.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/LangMatches.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/LangMatches.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -18,7 +18,7 @@
 /**
  * The lang matches a language pattern.
  * This is a rudimentary implementation that is equivalent to the Jena langMatch test.
- * TODO: fully implement RFC 4647: {@link http://www.ietf.org/rfc/rfc4647.txt}
+ * TODO: fully implement RFC 4647: <a href="http://www.ietf.org/rfc/rfc4647.txt">http://www.ietf.org/rfc/rfc4647.txt</a>
  *
  * @created Mar 8, 2008
  * @author Paul Gearon

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/Not.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/Not.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/Not.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -33,7 +33,7 @@
 
   /**
    * Create an inversion of a filter
-   * @param filter The filter to invert
+   * @param operand The filter to invert
    */
   public Not(Filter operand) {
     super(operand);
@@ -41,7 +41,7 @@
   }
 
   /**
-   * @see org.mulgara.query.filter.Filter#test()
+   * @see org.mulgara.query.filter.Filter#test(Context)
    */
   public boolean test(Context context) throws QueryException {
     setCurrentContext(context);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/Or.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/Or.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/Or.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -41,7 +41,7 @@
    * Returns the head of the list ORed with the sum of the remainder of the list.
    * <code>true</code> or Exception is <code>true</code>.
    * <code>false</code> or Exception is Exception.
-   * @see org.mulgara.query.filter.Filter#test()
+   * @see org.mulgara.query.filter.Filter#test(Context)
    */
   boolean testList(Context context, List<Filter> filters) throws QueryException {
     Filter head = filters.get(0);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/RegexFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/RegexFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/RegexFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -42,18 +42,19 @@
   private String oldFlags = null;
 
   /**
-   * Creates an equality test operation with default flags
-   * @param lhs The first term to compare
-   * @param rhs The second term to compare
+   * Creates an RegEx test operation with default flags.
+   * @param str The string value to be tested.
+   * @param patternStr The pattern to match the string against.
    */
   public RegexFn(ValueLiteral str, ValueLiteral patternStr) {
     super(str, patternStr);
   }
 
   /**
-   * Creates an equality test operation with default flags
-   * @param lhs The first term to compare
-   * @param rhs The second term to compare
+   * Creates an RegEx test operation with specified flags.
+   * @param str The string value to be tested.
+   * @param patternStr The pattern to match the string against.
+   * @param flagExpression The flags to be used in the expression.
    */
   public RegexFn(ValueLiteral str, ValueLiteral patternStr, ValueLiteral flagExpression) {
     super(str, patternStr);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AbstractNumericOperation.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AbstractNumericOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AbstractNumericOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -36,7 +36,7 @@
   /** @see org.mulgara.query.filter.value.ComparableExpression#getValue() */
   public Number getValue() throws QueryException { return getNumber(); }
 
-  /** @see org.mulgara.query.filter.RDFTerm#equals() */
+  /** @see org.mulgara.query.filter.RDFTerm#equals(RDFTerm) */
   public boolean equals(RDFTerm v) throws QueryException { return compare(getNumber(), v.getValue()) == 0; }
 
   /** @see org.mulgara.query.filter.RDFTerm#isBlank() */
@@ -51,10 +51,10 @@
   /** @see org.mulgara.query.filter.RDFTerm#isURI() */
   public boolean isURI() throws QueryException { return false; }
 
-  /** @see org.mulgara.query.filter.RDFTerm#sameTerm() */
+  /** @see org.mulgara.query.filter.RDFTerm#sameTerm(RDFTerm) */
   public boolean sameTerm(RDFTerm v) throws QueryException { return getNumber().equals(v.getValue()); }
 
-  /** @see org.mulgara.query.filter.Filter#test() */
+  /** @see org.mulgara.query.filter.Filter#test(Context) */
   public boolean test(Context context) throws QueryException {
     setCurrentContext(context);
     return getNumber().doubleValue() != 0.0;

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AddOperation.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AddOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/AddOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -57,7 +57,7 @@
 
   /**
    * A recursive method to build a NumericExpression that represents the addition of all addends in the list.
-   * @param operands The list of addends to sum.
+   * @param ops The list of addends to sum.
    * @return A NumericExpression which represents the addition of everything in the ops list.
    */
   private static NumericExpression createNestedAdd(List<NumericExpression> ops) {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/DivideOperation.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/DivideOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/DivideOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -58,7 +58,7 @@
   /**
    * A recursive method to build a NumericExpression that represents the division of all values in the list.
    * This constructs a linked list of divisions.
-   * @param operands The list of values to divide.
+   * @param ops The list of values to divide.
    * @return A NumericExpression which represents the ordered division of everything in the ops list.
    */
   private static NumericExpression createNestedDivision(List<NumericExpression> ops) {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MinusOperation.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MinusOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MinusOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -57,7 +57,7 @@
 
   /**
    * A recursive method to build a NumericExpression that represents the subtraction of all values in the list.
-   * @param operands The list of values to subtract.
+   * @param ops The list of values to subtract.
    * @return A NumericExpression which represents the ordered subtraction of everything in the ops list.
    */
   private static NumericExpression createNestedSubtraction(List<NumericExpression> ops) {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MultiplyOperation.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MultiplyOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/arithmetic/MultiplyOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -57,7 +57,7 @@
 
   /**
    * A recursive method to build a NumericExpression that represents the product of all multipliers in the list.
-   * @param operands The list of multipliers to multiply.
+   * @param ops The list of multipliers to multiply.
    * @return A NumericExpression which represents the product of everything in the ops list.
    */
   private static NumericExpression createNestedMultiply(List<NumericExpression> ops) {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparable.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparable.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparable.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -52,7 +52,9 @@
     return !lessThan(v);
   }
 
-  /** {@inheritDoc} */
+  /**
+   * Equality comparison used for other objects that are explicitly comparable.
+   */
   public boolean equals(ComparableExpression v) throws QueryException {
     return compare(getValue(), v.getValue()) == 0;
   }

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparableLiteral.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparableLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/AbstractComparableLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -84,7 +84,7 @@
    * {@inheritDoc}
    * This method will only return <code>true</code> when the elements are identical.
    * Since this object is a literal, then an incorrect comparison will throw an exception.
-   * {@link http://www.w3.org/TR/rdf-sparql-query/#func-RDFterm-equal}
+   * See: <a href="http://www.w3.org/TR/rdf-sparql-query/#func-RDFterm-equal">http://www.w3.org/TR/rdf-sparql-query/#func-RDFterm-equal</a>
    * <em>produces a type error if the arguments are both literal but are not the same RDF term</em>
    */
   public boolean equals(RDFTerm v) throws QueryException {
@@ -115,7 +115,7 @@
    *   <li>XSD strings</li>
    * </ul>
    * Simple strings and numbers are handled elsewhere.
-   * @param vl The other value literal to be compared against.
+   * @param term The other value literal to be compared against.
    * @return <code>true</code> if direct comparison is allowed between these types.
    * @throws QueryException If there is a data error accessing the types.
    */
@@ -134,7 +134,7 @@
   /**
    * Compares the type of this object to the type of another object. This takes into account
    * that Simple Literals claim to have a string type, when they have no type at all.
-   * @param vl The object to test.
+   * @param term The object to test.
    * @return <code>true</code> if the types are exactly the same. If both types are strings,
    *   then both objects have to be typed literals, or untyped literals.
    * @throws QueryException If there is an error accessing the type data.

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/BlankNodeValue.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/BlankNodeValue.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/BlankNodeValue.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -36,7 +36,7 @@
 
   /**
    * Creates the value to wrap the string
-   * @param s The string to wrap
+   * @param node The string to wrap
    */
   public BlankNodeValue(BlankNode node) {
     this.node = node;

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/Bool.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/Bool.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/Bool.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -44,7 +44,7 @@
 
   /**
    * Creates the value to wrap the boolean
-   * @param n The boolean to wrap
+   * @param b The boolean to wrap
    */
   public Bool(Boolean b) {
     super(b, TYPE);

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/DataTypeFn.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/DataTypeFn.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/DataTypeFn.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -42,7 +42,7 @@
     return false;
   }
 
-  /** @see org.mulgara.query.filter.RDFTerm#isIri() */
+  /** @see org.mulgara.query.filter.RDFTerm#isIRI() */
   public boolean isIRI() throws QueryException {
     return true;
   }

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/IRI.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/IRI.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/IRI.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -37,8 +37,8 @@
   private final URI value;
 
   /**
-   * Creates the value to wrap the string
-   * @param s The string to wrap
+   * Creates the value to wrap the uri.
+   * @param u The URI to wrap
    */
   public IRI(URI u) {
     value = u;

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/NumericLiteral.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/NumericLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/NumericLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -44,6 +44,7 @@
    * Creates the value to wrap a number. This is the same as the previous
    * constructor, but allows the caller to provide a hint for the URI.
    * @param n The number to wrap
+   * @param typeUri The XSD URI for the type of number.
    */
   public NumericLiteral(Number n, URI typeUri) {
     super(getValueFor(n, typeUri), typeUri);
@@ -65,7 +66,7 @@
 
   /**
    * Tests if a URI represents a numeric type.
-   * @param The URI to test.
+   * @param type The URI to test.
    * @return <code>true</code> iff type represents a numeric type.
    */
   public static boolean isNumeric(URI type) {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/SimpleLiteral.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/SimpleLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/SimpleLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -85,7 +85,7 @@
   }
 
   /**
-   * @see org.mulgara.query.filter.value.ComparableExpression#test()
+   * @see org.mulgara.query.filter.value.ComparableExpression#test(Context)
    */
   public boolean test(Context context) throws QueryException {
     return value != null && ((String)value).length() != 0;
@@ -108,7 +108,7 @@
    * This method will only return <code>true</code> when the elements are identical, and
    * <code>false</code> when they are the same type, but different values.
    * Since this object is a literal, then a comparison with another type will throw an exception.
-   * {@link http://www.w3.org/TR/rdf-sparql-query/#func-RDFterm-equal}
+   * See: <a href="http://www.w3.org/TR/rdf-sparql-query/#func-RDFterm-equal">http://www.w3.org/TR/rdf-sparql-query/#func-RDFterm-equal</a>
    * <em>produces a type error if the arguments are both literal but are not the same RDF term</em>
    */
   public boolean equals(RDFTerm v) throws QueryException {

Modified: trunk/src/jar/query/java/org/mulgara/query/filter/value/Var.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/filter/value/Var.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/filter/value/Var.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -55,7 +55,7 @@
 
   /**
    * Instantiate a variable.
-   * @param n The boolean to wrap
+   * @param name The boolean to wrap
    */
   public Var(String name) {
     this.name = name;

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/Commit.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/Commit.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/Commit.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -24,7 +24,7 @@
  * commits through a different method to the standard call path, while the normal
  * call will pass in a {@link org.mulgara.connection.DummyConnection}.
  *
- * After performing a commit, all connections are left in place {@link #cleanup(Iterator)} and
+ * After performing a commit, all connections are left in place and
  * the transaction is kept open {@link #stayInTx()}.
  * 
  * @created 2007-08-09

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/CreateGraph.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/CreateGraph.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/CreateGraph.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -75,7 +75,7 @@
 
   /**
    * Perform the action of creating the graph.
-   * @param The connection to a session to create the graph in.
+   * @param conn The connection to a session to create the graph in.
    * @return Text describing the outcome.
    */
   public Object execute(Connection conn) throws QueryException {

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/DataOutputTx.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/DataOutputTx.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/DataOutputTx.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -85,7 +85,6 @@
    * and receive over the connection. Delegates to the {@link #doTx(Connection, OutputStream)}
    * abstract method to send the data over the connection.
    * @param conn The connection to the server.
-   * @return The number of statements inserted.
    * @throws QueryException There was an error working with data at the server end.
    * @throws IOException There was an error transferring data over the network.
    */

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/Load.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/Load.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/Load.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -78,7 +78,7 @@
    * @param graphURI The URI of the graph to receive the data.
    * @param stream The local input stream that is the source of data to load.
    * @param contentType the content type for the stream.
-   * @param fileUri
+   * @param file A string form of the uri of the file to load.
    */
   public Load(URI graphURI, InputStream stream, MimeType contentType, String file) {
     this(toUri(file), graphURI, true);
@@ -140,8 +140,8 @@
 
   /**
    * Attempt to turn a filename into a URI. If unsuccessful return null.
-   * @param filename
-   * @return
+   * @param filename The path for a file.
+   * @return The URI for the file, or null if the filename could not be converted.
    */
   private static URI toUri(String filename) {
     if (filename == null) return null;

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/NullOp.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/NullOp.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/NullOp.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -24,7 +24,7 @@
 public class NullOp extends LocalCommand {
 
   /**
-   * @see org.mulgara.operation.Command#isUICommand()
+   * @see org.mulgara.query.operation.Command#isUICommand()
    */
   public boolean isUICommand() {
     return false;

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/Restore.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/Restore.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/Restore.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -63,7 +63,7 @@
    * constructor for API calls that use their own server connections.  The server URI
    * is not an argument for the restore operation, and will be specified by the existing
    * connection.
-   * @param source The input stream that will provide the restore contents.
+   * @param inputStream The input stream that will provide the restore contents.
    */
   public Restore(InputStream inputStream) {
     this(null, null, true);

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/Rollback.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/Rollback.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/Rollback.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -26,7 +26,7 @@
  * rollbacks through a different method to the standard call path, while the normal
  * call will pass in a {@link org.mulgara.connection.DummyConnection}.
  *
- * After performing a rollback, all connections are removed {@link #cleanup(Iterator)} and
+ * After performing a rollback, all connections are removed and
  * the transaction is closed {@link #stayInTx()}.
  * 
  * @created 2007-08-09

Modified: trunk/src/jar/query/java/org/mulgara/query/operation/TxOp.java
===================================================================
--- trunk/src/jar/query/java/org/mulgara/query/operation/TxOp.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/query/java/org/mulgara/query/operation/TxOp.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -27,7 +27,7 @@
 
   /**
    * Perform the operation for manipulating this transaction.
-   * @param s The session to perform the operation on.
+   * @param conn The connection to perform the operation on.
    * @return The resulting message.
    * @throws QueryException The operation failed.
    */

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/CommandSplitter.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/CommandSplitter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/CommandSplitter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -28,7 +28,7 @@
   
   /**
    * Split the given string into an array of strings containing individual elements.
-   * @param All the commands in a long string.
+   * @param commands All the commands in a long string.
    * @return An array of individual commands.
    */
   List<String> split(String commands);

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterBean.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterBean.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterBean.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -78,7 +78,7 @@
  * This class provides a simple interface for the execution of iTQL queries.
  * </p>
  * <p>
- * Note. This class will be deprecated and is going away in favour of {@link org.mulgara.connection.MulgaraConnection}
+ * Note. This class will be deprecated and is going away in favour of {@link org.mulgara.connection.Connection}
  * based interfaces.
  * </p>
  *
@@ -86,8 +86,6 @@
  * @author Tate Jones
  * @author Ben Warren
  * @author Tom Adams
- * @version $Revision: 1.11 $
- * @modified $Date: 2005/04/04 11:30:11 $ by $Author: tomadams $
  * @copyright &copy;2001-2004 <a href="http://www.tucanatech.com/">Tucana Technology, Inc</a>
  * @copyright &copy;2005 <a href="mailto:tomjadams at gmail.com">Tom Adams</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterException.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterException.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/ItqlInterpreterException.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -29,7 +29,7 @@
 
 
 /**
- * Exception thrown by {@link ItqlInterpreter} operations when the query returns
+ * Exception thrown by {@link TqlInterpreter} operations when the query returns
  * an expection.
  *
  * @created 2002-01-10

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/SableCCInterpreter.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/SableCCInterpreter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/SableCCInterpreter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -67,11 +67,11 @@
    *
    * Resolution will treat the token as an XML
    * <a href="http://www.w3.org/TR/REC-xml-names/#ns-qualnames">qualified
-   * names</a> if the {@link #aliasMap} <code>aliasMap</code> contains a key
+   * names</a> if the <code>aliasMap</code> contains a key
    * for the URI scheme part that can be treated as an XML namespace prefix.
    * For example, <kbd>dc:title</kbd> is treated as a qname and mapped to the
    * to the URI <kbd>http://purl.org/dc/elements/1.1/title</kbd>, assuming the
-   * {@link #aliasMap} had an entry mapping <code>"dc"</code> to the Dublin
+   * aliasMap had an entry mapping <code>"dc"</code> to the Dublin
    * Core namespace.
    *
    * @param token  the token to be converted, which should actually be a

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/TqlInterpreter.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/TqlInterpreter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/TqlInterpreter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -924,7 +924,7 @@
 
 
   /**
-   * @see org.mulgara.itql.QueryInterpreter#toLiteralImpl(org.mulgara.itql.node.PLiteral)
+   * @see org.mulgara.itql.SableCCInterpreter#toLiteralImpl(PLiteral)
    * Despite onyl being accessed from within this package (both locally and from
    * {@link VariableBuilder}) this method must be public, as it has to appear in
    * the {@link Interpreter} interface.
@@ -950,7 +950,7 @@
 
 
   /**
-   * @see org.mulgara.itql.QueryInterpreter#toURI(org.mulgara.itql.node.Token)
+   * @see org.mulgara.itql.SableCCInterpreter#toURI(Token)
    */
   public URI toURI(Token token) {
   
@@ -960,7 +960,7 @@
 
 
   /**
-   * @see org.mulgara.itql.QueryInterpreter#nextAnonVariable()
+   * @see org.mulgara.itql.SableCCInterpreter#nextAnonVariable()
    * Called by {@link ConstraintExpressionBuilder}
    */
   public Variable nextAnonVariable() {
@@ -1120,7 +1120,7 @@
    * the <code>rawVariableList</code> and the returned list will <strong>not
    * </strong> contain the variable prefix <code>$</code> in their name.
    *
-   * @param rawOrderList The SableCC list of elements to order by.
+   * @param orderClause The SableCC list of elements to order by.
    * @return a list of {@link org.mulgara.query.Variable}s, suitable for use
    *      in creating a {@link org.mulgara.query.Query}, or an empty list if
    *      there are no elements to be ordered by.
@@ -1183,7 +1183,7 @@
    * to resolve aliases.  To comply with a HAVING clause the predicate must be one of:
    * mulgara:occurs mulgara:occursLessThan mulgara:occursMoreThan.
    *
-   * @param expression a constraint expression from the parser
+   * @param havingClause a constraint expression from the parser
    * @return A new ConstraintExpression representing the HAVING condition
    * @throws QueryException if <code>rawConstraintExpression</code> does not
    *      represent a valid query

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/TqlSession.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/TqlSession.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/TqlSession.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -294,7 +294,7 @@
   }
 
   /**
-   * Executes a script given by URL name. {@see executeScript} for implementation.
+   * Executes a script given by URL name. See {@link #executeScript(URL)} for implementation.
    * @param script The string for the script URL.
    * @throws MalformedURLException The given script name cannot be represented as a URL.
    */
@@ -483,9 +483,6 @@
 
   /**
    * Initiates a session using the given <code>session</code>
-   * @param session the interactive session to issue commands to
-   * @param in the stream to read commands from
-   * @param out the stream to print responses to
    */
   private void motdInitialization() {
     gui.print("TQL Command Line Interface" + EOL);

Modified: trunk/src/jar/querylang/java/org/mulgara/itql/TqlSessionUI.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/itql/TqlSessionUI.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/itql/TqlSessionUI.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -102,8 +102,10 @@
   
   /**
    * Create a new UI representation.
-   * @param newItqlSession the itql session to call when we receive commands and
+   * @param newTqlSession the itql session to call when we receive commands and
    *        when we want to display them.
+   * @param inStream The console input for this session.
+   * @param outStream The console output for this session.
    */
   public TqlSessionUI(TqlSession newTqlSession, InputStream inStream, OutputStream outStream) {
     super();
@@ -517,7 +519,7 @@
 
   /**
    * Adds a text to the UI. Sends a little "closure" to the UI thread.
-   * @param message the message to display.
+   * @param cmd the command to send.
    */
   public void injectCommand(final String cmd) {
     invokeAndWait(new Runnable() {

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/FilterMapper.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/FilterMapper.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/FilterMapper.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -216,15 +216,14 @@
   /** Defines an interface for mapping expressions into an equivalent Filter operation. */
   private static interface ExpressionToTerm<T extends Expression> {
     /**
-     * A main entry point for the mapper, which will do the casting into {@link #typedMap(Expression, FilterMapper)}.
+     * A main entry point for the mapper, which will do the casting into {@link #typedMap(Expression)}.
      * @param expr The expression to map to an RDFTerm.
-     * @param parent The surrounding FilterMapper class.
      * @return A {@link RDFTerm} that is the equivalent to the given expression.
      */
     public RDFTerm map(Expression expr) throws MulgaraParserException;
     /**
      * Convert an Expression to a RDFTerm for Mulgara.
-     * @param expr The Expression to convert. Should be specific to the mapper.
+     * @param pattern The Expression to convert. Should be specific to the mapper.
      * @return The RDFTerm relevant to the mapper.
      */
     RDFTerm typedMap(T pattern) throws MulgaraParserException;

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/PatternMapper.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/PatternMapper.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/PatternMapper.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -56,7 +56,7 @@
 import org.mulgara.query.rdf.XSD;
 
 /**
- * This object maps a {@link GroupGraphPattern} into a {@link ConstraintExpresion}.
+ * This object maps a {@link GroupGraphPattern} into a {@link ConstraintExpression}.
  *
  * @created Apr 21, 2008
  * @author Paul Gearon

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/PatternTransformer.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/PatternTransformer.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/PatternTransformer.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -28,7 +28,7 @@
 import org.mulgara.query.filter.value.Bool;
 
 /**
- * This object transforms a {@link ConstraintExpression} into a minimized {@link ConstraintExpresion}.
+ * This object transforms a {@link ConstraintExpression} into a minimized {@link ConstraintExpression}.
  *
  * @created May 06, 2008
  * @author Paul Gearon
@@ -66,7 +66,7 @@
 
   /**
    * Utility method to add a transformer to the map, keyed on the class it transforms.
-   * @param mapper The mapper to add to the map.
+   * @param tx The transformer to add to the map.
    */
   static void addToMap(Transformer<?> tx) {
     txMap.put(tx.getTxType(), tx);

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/SparqlInterpreter.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/SparqlInterpreter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/SparqlInterpreter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -114,7 +114,7 @@
 
   /**
    * Sets the default graphs to use in parsed queries.
-   * @param graph The graph URIs to use as the default graphs. A <code>null</code> value
+   * @param graphUris The graph URIs to use as the default graphs. A <code>null</code> value
    *        is treated the same as an empty list.
    */
   public SparqlInterpreter setDefaultGraphUris(List<URI> graphUris) {

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/QueryStructureImpl.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/QueryStructureImpl.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/QueryStructureImpl.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -269,7 +269,7 @@
    * Create a new IRI based on a prefixed name.Note that this implementation
    * only accepts URIs, and not the more complete IRI.
    * @param r The string containing the image of the IRI
-   * @returnA new {@link org.mulgara.sparql.parser.cst.IRIReference} for the string image.
+   * @return A new {@link org.mulgara.sparql.parser.cst.IRIReference} for the string image.
    * @throws ParseException The r parameter was not a syntactically valid URI.
    */
   IRIReference newPrefixedName(String r) throws ParseException {

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/AnnotatedNode.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/AnnotatedNode.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/AnnotatedNode.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -57,8 +57,9 @@
   }
 
   /**
-   * Create an annotated subject node from a collection.
-   * @param list The RDF collection.
+   * Create an annotated subject node from a set of properties.
+   * @param subject The subject for every triple in the list.
+   * @param properties The properties and values for the subject.
    */
   public AnnotatedNode(Node subject, PropertyList properties) {
     this.subject = subject;

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicLangMatches.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicLangMatches.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicLangMatches.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -27,7 +27,8 @@
 
   /**
    * Construct an invocation to the STR function
-   * @param operand The operand for the function
+   * @param op1 The first operand for the function
+   * @param op2 The second operand for the function
    */
   public BicLangMatches(Expression op1, Expression op2) {
     super(op1, op2);

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicSameTerm.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicSameTerm.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BicSameTerm.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -27,7 +27,8 @@
 
   /**
    * Construct an invocation to the STR function
-   * @param operand The operand for the function
+   * @param op1 The first operand for the function
+   * @param op2 The second operand for the function
    */
   public BicSameTerm(Expression op1, Expression op2) {
     super(op1, op2);

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BlankNode.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BlankNode.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/BlankNode.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -38,7 +38,7 @@
 
   /**
    * Get the label for this node.
-   * @return 
+   * @return The label for this node.
    */
   public String getLabel() {
     return label;

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DecimalLiteral.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DecimalLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DecimalLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -32,7 +32,7 @@
 
   /**
    * Constructs the literal from a string image.
-   * @param value The string image of the value for this literal
+   * @param s The string image of the value for this literal
    */
   public DecimalLiteral(String s) {
     this.value = new BigDecimal(s);

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DoubleLiteral.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DoubleLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/DoubleLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -30,7 +30,7 @@
 
   /**
    * Constructs the literal from a string image.
-   * @param value The string image of the value for this literal
+   * @param s The string image of the value for this literal
    */
   public DoubleLiteral(String s) {
     this.value = Double.parseDouble(s);

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/IntegerLiteral.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/IntegerLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/IntegerLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -30,7 +30,7 @@
 
   /**
    * Constructs the literal from a string image.
-   * @param value The string image of the value for this literal
+   * @param s The string image of the value for this literal
    */
   public IntegerLiteral(String s) {
     this.value = Integer.parseInt(s);

Modified: trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/RDFLiteral.java
===================================================================
--- trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/RDFLiteral.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/querylang/java/org/mulgara/sparql/parser/cst/RDFLiteral.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -75,7 +75,7 @@
   /**
    * Constructor for a typed literal.
    * @param value The literal data.
-   * @param datatype The type of the literal.
+   * @param language The language code for the literal.
    */
   public RDFLiteral(String value, String language) {
     this.value = unescape(value);

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/ApplyRulesOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/ApplyRulesOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/ApplyRulesOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -60,7 +60,7 @@
   }
 
   /**
-   * @see org.mulgara.resolver.Operation#execute(org.mulgara.resolver.OperationContext, org.mulgara.resolver.spi.SystemResolver, org.mulgara.resolver.spi.ResolverSessionFactory, org.mulgara.resolver.spi.DatabaseMetadata)
+   * @see org.mulgara.resolver.Operation#execute(OperationContext, SystemResolver, DatabaseMetadata)
    * Runs the rules over the configured data.
    */
   public void execute(OperationContext         operationContext,

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/BackupOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/BackupOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/BackupOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -122,11 +122,10 @@
   /**
    * Dumps the entire database to the specified Writer.
    *
-   * @param stringPool StringPool
-   * @param resolver Resolver
-   * @param metadata DatabaseMetadata
-   * @param writer Writer
-   * @throws Exception
+   * @param systemResolver The system resolver for the database.
+   * @param metadata The Metadata for the database.
+   * @param writer Writer The output to write to.
+   * @throws Exception Due to any error accessing the database or writing to the writer.
    */
   private void backupDatabase(SystemResolver systemResolver, DatabaseMetadata metadata, Writer writer)
       throws Exception {

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/BuildRulesOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/BuildRulesOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/BuildRulesOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -71,7 +71,7 @@
   }
 
   /**
-   * @see org.mulgara.resolver.Operation#execute(org.mulgara.resolver.OperationContext, org.mulgara.resolver.spi.SystemResolver, org.mulgara.resolver.spi.ResolverSessionFactory, org.mulgara.resolver.spi.DatabaseMetadata)
+   * @see org.mulgara.resolver.Operation#execute(OperationContext, SystemResolver, DatabaseMetadata)
    */
   public void execute(OperationContext       operationContext,
                       SystemResolver         systemResolver,

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/CreateDefaultGraphOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/CreateDefaultGraphOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/CreateDefaultGraphOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -26,7 +26,8 @@
 import org.mulgara.store.nodepool.NodePool;
 
 /**
- * An {@link Operation} that implements the {@link Session#createDefaultGraph} method.
+ * An {@link Operation} that implements the
+ * {@link org.mulgara.resolver.DatabaseSession#createDefaultGraph(URI, URI)} method.
  *
  * @created May 8, 2008
  * @author Paul Gearon

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/CreateGraphOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/CreateGraphOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/CreateGraphOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -43,8 +43,7 @@
 import org.mulgara.util.QueryParams;
 
 /**
- * An {@link Operation} that implements the {@link Session#createModel} method.
- * TODO: Rename to CreateGraphOperation.
+ * An {@link Operation} that implements the {@link org.mulgara.server.Session#createModel(URI, URI)} method.
  *
  * @created 2004-11-24
  * @author <a href="http://staff.pisoftware.com/raboczi">Simon Raboczi</a>
@@ -246,7 +245,7 @@
   /**
    * Test if the given URI is in a scheme which differentiates graphs based on fragments
    * and there is no sub-graph name encoded in the URI.
-   * @param graphUri The URI to test for the graph.
+   * @param u The URI to test for the graph.
    * @return <code>true</code> only of the URI is in the known graph schemes.
    */
   private static boolean fragmentScheme(URI u) {

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/Database.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/Database.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/Database.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -83,7 +83,7 @@
  * A database capable of managing and querying RDF models using a collection of
  * {@link ResolverFactory} instances.
  *
- * This class is essentially a transaction manager for the {@link Resolver}s.
+ * This class is essentially a transaction manager for the {@link org.mulgara.resolver.spi.Resolver}s.
  *
  * @created 2004-04-26
  * @author <a href="http://www.pisoftware.com/raboczi">Simon Raboczi</a>
@@ -95,11 +95,10 @@
  *   Technology, Inc</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-public class Database implements SessionFactory
-{
+public class Database implements SessionFactory {
+
   /** Logger.  */
-  private static final Logger logger =
-    Logger.getLogger(Database.class.getName());
+  private static final Logger logger = Logger.getLogger(Database.class.getName());
 
   /** Startup Logger - will always have info enabled  */
   private static final Logger startupLogger = Logger.getLogger("Startup");
@@ -108,7 +107,7 @@
    * Placeholder indicating a nonexistent local node.
    *
    * This is a stopgap measure to deal with the lack of a defined negative
-   * return value from {@link StringPool#findGNode}.
+   * return value from {@link org.mulgara.store.stringpool.StringPool#findGNode(org.mulgara.store.stringpool.SPObject)}.
    */
   @SuppressWarnings("unused")
   private final long NONE = NodePool.NONE;
@@ -174,7 +173,7 @@
     Collections.unmodifiableMap(externalResolverFactoryMap);
 
   /**
-   * Keyed on model type {@link LocalNode}s, mapping to an
+   * Keyed on model type {@link org.mulgara.query.LocalNode}s, mapping to an
    * {@link InternalResolverFactory} instance that wraps the actual
    * {@link ResolverFactory} instance which manages that model type.
    */
@@ -371,7 +370,7 @@
    * @param securityDomainURI  the {@link URI} of the security domain this
    *   database is within, or <code>null</code> if this database is unsecured
    * @param transactionManagerFactory  the source for the
-   *   {@link TransactionManager}, never <code>null</code>
+   *   {@link javax.transaction.TransactionManager}, never <code>null</code>
    * @param transactionTimeout  the default number of seconds before transactions
    *   time out, or zero to take the <var>transactionManagerFactory</var>'s default;
    *   never negative
@@ -379,25 +378,25 @@
    *   it is timed out, or zero to take the <var>transactionManagerFactory</var>'s
    *   default; never negative
    * @param persistentNodePoolFactoryClassName  the name of a
-   *   {@link NodePoolFactory} implementation which will be used to generate
+   *   {@link org.mulgara.store.nodepool.NodePoolFactory} implementation which will be used to generate
    *   persistent local nodes, never <code>null</code>
    * @param persistentStringPoolFactoryClassName  the name of a
-   *   {@link StringPoolFactory} implementation which will be used to manage
+   *   {@link org.mulgara.store.stringpool.StringPoolFactory} implementation which will be used to manage
    *   persistent RDF literals, never <code>null</code>
    * @param systemResolverFactoryClassName  the name of a
    *   {@link ResolverFactory} implementation which will be used to store
    *   system models; this class is required to register a model type
    * @param temporaryNodePoolFactoryClassName  the name of a
-   *   {@link NodePoolFactory} implementation which will be used to generate
+   *   {@link org.mulgara.store.nodepool.NodePoolFactory} implementation which will be used to generate
    *   temporary local nodes, never <code>null</code>
    * @param temporaryStringPoolFactoryClassName  the name of a
-   *   {@link StringPoolFactory} implementation which will be used to manage
+   *   {@link org.mulgara.store.stringpool.StringPoolFactory} implementation which will be used to manage
    *   temporary RDF literals, never <code>null</code>
    * @param temporaryResolverFactoryClassName  the name of a
    *   {@link ResolverFactory} implementation which will be used to store
    *   temporary statements, never <code>null</code>
    * @param ruleLoaderClassName  the name of a
-   *   {@link RuleLoader} implementation which will be used for loading
+   *   {@link org.mulgara.rules.RuleLoader} implementation which will be used for loading
    *   rule frameworks, never <code>null</code>
    * @param defaultContentHandlerClassName the name of the class that should be
    *   used to parse external content of unknown MIME type, or
@@ -405,8 +404,8 @@
    * @throws IllegalArgumentException if <var>uri</var>,
    *   <var>systemResolverFactory</var> are <code>null</code>, or if the
    *   <var>uri</var> has a fragment part
-   * @throws InitializerException  if the {@link NodePoolFactory},
-   *   {@link ResolverFactory}, or {@link StringPoolFactory} instances
+   * @throws InitializerException  if the {@link org.mulgara.store.nodepool.NodePoolFactory},
+   *   {@link ResolverFactory}, or {@link org.mulgara.store.stringpool.StringPoolFactory} instances
    *   generated from the various class names can't be initialized
    * @throws SystemException if <var>transactionTimeout</var> is negative
    */
@@ -462,12 +461,12 @@
    * @param uri  the unique {@link URI} naming this database, never
    *   <code>null</code>; this mustn't have a fragment part, because the
    *   fragment is used to represent models within the database
-   * @param directory  an area on the filesystem for the database's use; if this
+   * @param directories  an array of areas on the filesystem for the database's use; if this
    *   is <code>null</code>, resolvers which require a filesystem can't be added
    * @param securityDomainURI  the {@link URI} of the security domain this
    *   database is within, or <code>null</code> if this database is unsecured
    * @param transactionManagerFactory  the source for the
-   *   {@link TransactionManager}, never <code>null</code>
+   *   {@link javax.transaction.TransactionManager}, never <code>null</code>
    * @param transactionTimeout  the default number of seconds before transactions
    *   time out, or zero to take the <var>transactionManagerFactory</var>'s default;
    *   never negative
@@ -475,25 +474,25 @@
    *   it is timed out, or zero to take the <var>transactionManagerFactory</var>'s
    *   default; never negative
    * @param persistentNodePoolFactoryClassName  the name of a
-   *   {@link NodePoolFactory} implementation which will be used to generate
+   *   {@link org.mulgara.store.nodepool.NodePoolFactory} implementation which will be used to generate
    *   persistent local nodes, never <code>null</code>
    * @param persistentStringPoolFactoryClassName  the name of a
-   *   {@link StringPoolFactory} implementation which will be used to manage
+   *   {@link org.mulgara.store.stringpool.StringPoolFactory} implementation which will be used to manage
    *   persistent RDF literals, never <code>null</code>
    * @param systemResolverFactoryClassName  the name of a
    *   {@link ResolverFactory} implementation which will be used to store
    *   system models; this class is required to register a model type
    * @param temporaryNodePoolFactoryClassName  the name of a
-   *   {@link NodePoolFactory} implementation which will be used to generate
+   *   {@link org.mulgara.store.nodepool.NodePoolFactory} implementation which will be used to generate
    *   temporary local nodes, never <code>null</code>
    * @param temporaryStringPoolFactoryClassName  the name of a
-   *   {@link StringPoolFactory} implementation which will be used to manage
+   *   {@link org.mulgara.store.stringpool.StringPoolFactory} implementation which will be used to manage
    *   temporary RDF literals, never <code>null</code>
    * @param temporaryResolverFactoryClassName  the name of a
    *   {@link ResolverFactory} implementation which will be used to store
    *   temporary statements, never <code>null</code>
    * @param ruleLoaderClassName  the name of a
-   *   {@link RuleLoader} implementation which will be used for loading
+   *   {@link org.mulgara.rules.RuleLoader} implementation which will be used for loading
    *   rule frameworks, never <code>null</code>
    * @param defaultContentHandlerClassName the name of the class that should be
    *   used to parse external content of unknown MIME type, or
@@ -501,8 +500,8 @@
    * @throws IllegalArgumentException if <var>uri</var>,
    *   <var>systemResolverFactory</var> are <code>null</code>, or if the
    *   <var>uri</var> has a fragment part
-   * @throws InitializerException  if the {@link NodePoolFactory},
-   *   {@link ResolverFactory}, or {@link StringPoolFactory} instances
+   * @throws InitializerException  if the {@link org.mulgara.store.nodepool.NodePoolFactory},
+   *   {@link ResolverFactory}, or {@link org.mulgara.store.stringpool.StringPoolFactory} instances
    *   generated from the various class names can't be initialized
    * @throws SystemException if <var>transactionTimeout</var> is negative
    */
@@ -827,11 +826,11 @@
 
 
   /**
-   * Register a new kind of {@link Content} with this database.
+   * Register a new kind of {@link org.mulgara.content.Content} with this database.
    *
-   * @param className  the name of a class implementing {@link ContentHandler}
+   * @param className  the name of a class implementing {@link org.mulgara.content.ContentHandler}
    * @throws IllegalArgumentException if <var>className</var> is
-   *   <code>null</code> or isn't a valid {@link ContentHandler}
+   *   <code>null</code> or isn't a valid {@link org.mulgara.content.ContentHandler}
    */
   public void addContentHandler(String className) {
     if (logger.isDebugEnabled()) {

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseFactoryInitializer.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseFactoryInitializer.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseFactoryInitializer.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -40,7 +40,7 @@
 
 /**
  * The database initialiser used to provide configuration information to
- * {@link NodePool} and {@link StringPool} instances.
+ * {@link org.mulgara.store.nodepool.NodePool} and {@link org.mulgara.store.stringpool.StringPool} instances.
  *
  * The {@link #close} method can be called after initialization to prevent
  * access to the interface.

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseOperationContext.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseOperationContext.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseOperationContext.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -441,8 +441,8 @@
    *
    * @param graph  the local node of a graph
    * @return the local node representing the type of the <var>graph</var>, or
-   *   {@link NodePool#NONE} if the <var>graph</var> isn't stored within the
-   *   system
+   *   {@link org.mulgara.store.nodepool.NodePool#NONE} if the <var>graph</var>
+   *   isn't stored within the system
    * @throws QueryException if the graph type can't be determined
    */
   private URI findGraphTypeURI(long graph) throws QueryException, GlobalizeException {

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSecurityAdapterInitializer.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSecurityAdapterInitializer.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSecurityAdapterInitializer.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -52,16 +52,15 @@
  *   Technology, Inc</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-class DatabaseSecurityAdapterInitializer extends DatabaseInitializer
-  implements SecurityAdapterInitializer
-{
+class DatabaseSecurityAdapterInitializer extends DatabaseInitializer implements SecurityAdapterInitializer {
+
   /** The {@link Database} to initialize. */
   private final Database database;
 
   /** The metadata of the {link Database} to initialize. */
   private final DatabaseMetadata databaseMetadata;
 
-  /** A {@link SessionFactory} which produces unsecured {@link Session}s. */
+  /** A {@link SessionFactory} which produces unsecured {@link org.mulgara.server.Session}s. */
   private final SessionFactory unsecuredSessionFactory;
 
   /**

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSession.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSession.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/DatabaseSession.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -135,7 +135,7 @@
   /** A fallback rule loader */
   private static final String DUMMY_RULE_LOADER = "org.mulgara.rules.DummyRuleLoader";
 
-  /** The registered {@link ContentHandler} instances.  */
+  /** The registered {@link org.mulgara.content.ContentHandler} instances.  */
   private ContentHandlerManager contentHandlers;
 
   /** The temporary model type-URI. */
@@ -321,7 +321,7 @@
    *
    * @param node  an RDF node
    * @return the preallocated local node number corresponding to the
-   *   <var>node</var>, never {@link NodePool#NONE}
+   *   <var>node</var>, never {@link org.mulgara.store.nodepool.NodePool#NONE}
    * @throws QueryException if the local node number can't be obtained
    */
   long preallocate(Node node) throws QueryException {

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/InternalResolverFactory.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/InternalResolverFactory.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/InternalResolverFactory.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -49,8 +49,8 @@
  *      Software Pty Ltd</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-class InternalResolverFactory implements ResolverFactory
-{
+class InternalResolverFactory implements ResolverFactory {
+
   /**
    * The preallocated node for <code>rdf:type</code>.
    */
@@ -78,9 +78,9 @@
    *
    * @param resolverFactory  the instance to wrap, never <code>null</code>
    * @param rdfType  the preallocated node for <code>rdf:type</code>, or
-   *   {@link NodePool#NONE} if unavailable
+   *   {@link org.mulgara.store.nodepool.NodePool#NONE} if unavailable
    * @param systemModel  the preallocated node for the system model
-   *   (<code>#</code>), or {@link NodePool#NONE} if unavailable
+   *   (<code>#</code>), or {@link org.mulgara.store.nodepool.NodePool#NONE} if unavailable
    */
   InternalResolverFactory(ResolverFactory resolverFactory,
                           long            rdfType,

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/ModifyGraphOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/ModifyGraphOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/ModifyGraphOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -41,38 +41,23 @@
 import org.mulgara.resolver.spi.*;
 
 /**
- * An {@link Operation} that implements the {@link Session#insert} and
- * {@link Session#delete} methods.
+ * An {@link Operation} that implements the {@link org.mulgara.server.Session#insert(URI, Query)} and
+ * {@link org.mulgara.server.Session#delete(URI, Query)} methods.
  *
  * The operation is really two closely-related operations combined into one
  * class: modification by a specified set of {@link Triple}s, and modification
  * by the result of a specified {@link Query}.
  *
  * @created 2004-11-24
- *
  * @author <a href="http://staff.pisoftware.com/raboczi">Simon Raboczi</a>
- *
- * @version $Revision: 1.8 $
- *
- * @modified $Date: 2005/01/05 04:58:24 $ by $Author: newmana $
- *
- * @maintenanceAuthor $Author: newmana $
- *
- * @copyright &copy;2004 <a href="http://www.tucanatech.com/">Tucana
- *   Technology, Inc</a>
- *
+ * @copyright &copy;2004 <a href="http://www.tucanatech.com/">Tucana Technology, Inc</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-class ModifyGraphOperation implements Operation
-{
-  /**
-   * Logger.
-   *
-   * This is named after the class.
-   */
-  private static final Logger logger =
-    Logger.getLogger(ModifyGraphOperation.class.getName());
+class ModifyGraphOperation implements Operation {
 
+  /** Logger. */
+  private static final Logger logger = Logger.getLogger(ModifyGraphOperation.class.getName());
+
   /**
    * The URI of the model to be removed.
    */

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/MulgaraTransactionFactory.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/MulgaraTransactionFactory.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/MulgaraTransactionFactory.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -250,7 +250,7 @@
     }
   }
 
-  /** 
+  /**
    * Acquire the mutex. The mutex is re-entrant, but {@link #releaseMutex} must be called as many
    * times as this is called.
    *
@@ -258,8 +258,9 @@
    * can reliably get the current mutex-owner, and we use a lock around the mutex acquisition and
    * release to do atomic tests and settting of additional variables associated with the mutex.
    * 
+   * @param <T> the type of exception to throw on failure
    * @param timeout how many milliseconds to wait for the mutex, or 0 to wait indefinitely
-   * @param T       the type of exception to throw on failure
+   * @param exc An exception class that is the type that will be thrown in case of failure.
    * @throws T if the mutex could not be acquired, either due to a timeout or due to an interrupt
    */
   public final <T extends Throwable> void acquireMutex(long timeout, Class<T> exc) throws T {
@@ -294,8 +295,9 @@
   /** 
    * Acquire the mutex, interrupting the existing holder if there is one. 
    * 
+   * @param <T> the type of exception to throw on failure
    * @param timeout how many milliseconds to wait for the mutex, or 0 to wait indefinitely
-   * @param T       the type of exception to throw on failure
+   * @param exc An exception class that is the type that will be thrown in case of failure.
    * @throws T if the mutex could not be acquired, either due to a timeout or due to an interrupt
    * @see #acquireMutex
    */

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/Operation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/Operation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/Operation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -32,7 +32,7 @@
 import org.mulgara.resolver.spi.SystemResolver;
 
 /**
- * {@link Operation}s correspond to methods of the {@link Session} interface
+ * {@link Operation}s correspond to methods of the {@link org.mulgara.server.Session} interface
  * which need to be performed in a transactional context.
  *
  * They are created and used by {@link DatabaseSession}.
@@ -46,8 +46,7 @@
  *   Technology, Inc</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-interface Operation
-{
+interface Operation {
   /**
    * Perform a transactional operation.
    *

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/QueryOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/QueryOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/QueryOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -39,7 +39,7 @@
 import org.mulgara.resolver.spi.*;
 
 /**
- * An {@link Operation} that implements the {@link Session#query} method.
+ * An {@link Operation} that implements the {@link org.mulgara.server.Session#query(Query)} method.
  *
  * @created 2004-11-25
  *
@@ -50,8 +50,7 @@
  *
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-class QueryOperation implements Operation
-{
+class QueryOperation implements Operation {
   /** Logger. */
   // private static final Logger logger = Logger.getLogger(QueryOperation.class.getName());
 
@@ -75,7 +74,7 @@
   //
 
   /**
-   * Constructor for {@link Session#query(Query)} calls.
+   * Constructor for {@link org.mulgara.server.Session#query(Query)} calls.
    *
    * @param query  the query to be evaluated, never <code>null</code>
    * @param databaseSession  never <code>null</code>
@@ -100,16 +99,14 @@
   }
 
   /**
-   * Constructor for {@link Session#query(List)} calls.
+   * Constructor for {@link org.mulgara.server.Session#query(List)} calls.
    *
-   * @param queryList  the {@link Query} instances to be evaluated, never
-   *   <code>null</code>
+   * @param queryList  the {@link Query} instances to be evaluated, never <code>null</code>
    * @param databaseSession  never <code>null</code>
    * @throws IllegalArgumentException if <var>queryList</var> or
    *   <var>databaseSession</var> are <code>null</code>
    */
-  QueryOperation(List<Query> queryList, DatabaseSession databaseSession)
-  {
+  QueryOperation(List<Query> queryList, DatabaseSession databaseSession) {
     // Validate "query" parameter
     if (queryList == null) {
       throw new IllegalArgumentException("Null \"query\" parameter");

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/RestoreOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/RestoreOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/RestoreOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -649,7 +649,7 @@
    * @param n2nMap the IntFile that maps from backup file node IDs to current
    *      store node IDs.
    * @param oldNode the backup file node ID.
-   * @param ResolverSession Used to allocate new nodes.
+   * @param resolverSession Used to allocate new nodes.
    * @return the new node ID that the specified backup file node ID maps to.
    * @throws Exception EXCEPTION TO DO
    */

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/SetGraphOperation.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/SetGraphOperation.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/SetGraphOperation.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -48,7 +48,9 @@
 import org.mulgara.resolver.spi.*;
 
 /**
- * An {@link Operation} that implements the {@link Session#setModel} method.
+ * An {@link Operation} that implements the
+ * {@link org.mulgara.server.Session#setModel(URI, GraphExpression)} and
+ * {@link org.mulgara.server.Session#setModel(InputStream, URI, GraphExpression, MimeType)} methods.
  *
  * @created 2004-11-04
  *
@@ -65,16 +67,11 @@
  *
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-class SetGraphOperation implements Operation
-{
-  /**
-   * Logger.
-   *
-   * This is named after the class.
-   */
-  private static final Logger logger =
-    Logger.getLogger(SetGraphOperation.class.getName());
+class SetGraphOperation implements Operation {
 
+  /** Logger. */
+  private static final Logger logger = Logger.getLogger(SetGraphOperation.class.getName());
+
   private final URI         srcModelURI;
   private final URI         destModelURI;
   private final InputStream inputStream;

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/StreamContent.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/StreamContent.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/StreamContent.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -121,7 +121,7 @@
 
   /**
    * @return {@inheritDoc}; always returns <code>null</code> because Java
-   *   {@link File}s don't have any inherent MIME type
+   *   {@link java.io.File}s don't have any inherent MIME type
    */
   public MimeType getContentType() {
     return contentType;

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/StringPoolSession.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/StringPoolSession.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/StringPoolSession.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -76,7 +76,7 @@
     Logger.getLogger(StringPoolSession.class.getName());
 
   /**
-   * Stopgap to deal with the lack of a <q>no match</q> return value from the
+   * Stopgap to deal with the lack of a &quot;no match&quot; return value from the
    * string pool.
    */
   private static final long NONE = NodePool.NONE;

Modified: trunk/src/jar/resolver/java/org/mulgara/resolver/SystemGraphSecurityAdapter.java
===================================================================
--- trunk/src/jar/resolver/java/org/mulgara/resolver/SystemGraphSecurityAdapter.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver/java/org/mulgara/resolver/SystemGraphSecurityAdapter.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -33,10 +33,10 @@
 import org.mulgara.store.nodepool.NodePool;
 
 /**
- * This {@link SecurityAdapter} enforces the sanctity of the system model
+ * This {@link org.mulgara.resolver.spi.SecurityAdapter} enforces the sanctity of the system model
  * (<code>#</code>).
  *
- * A {@link Session} may only modify the contents of the system model
+ * A {@link org.mulgara.server.Session} may only modify the contents of the system model
  * indirectly, via the <code>backup</code>, <code>create</code>,
  * <code>drop</code> and <code>restore</code> methods.
  *
@@ -51,8 +51,7 @@
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
 
-class SystemGraphSecurityAdapter extends NullSecurityAdapter
-{
+class SystemGraphSecurityAdapter extends NullSecurityAdapter {
   /**
    * The preallocated node representing the system model.
    */

Modified: trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/GISDistanceStatements.java
===================================================================
--- trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/GISDistanceStatements.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/GISDistanceStatements.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -49,8 +49,8 @@
  * generates the following distance statements for each row:
  * $x   $z           $y
  * $y   $z           $x
- * $z   <:type>      <:distance>
- * $z   <:magnitude> "f($xlat,$xlong,$ylat,$ylong)"^^xsd:double
+ * $z   &lt;:type&gt;      &lt;:distance&gt;
+ * $z   &lt;:magnitude&gt; "f($xlat,$xlong,$ylat,$ylong)"^^xsd:double
  *
  * @created 2004-11-17
  *
@@ -71,11 +71,9 @@
  */
 public class GISDistanceStatements implements Statements {
 
-  /**
-   * Logger. This is named after the class.
-   */
-  private final static Logger log = Logger.getLogger(GISDistanceStatements.class.
-      getName());
+  /** Logger. */
+  @SuppressWarnings("unused")
+  private final static Logger logger = Logger.getLogger(GISDistanceStatements.class.getName());
 
   /** Number of statements generated per row of the Tuples */
   private static final int STATEMENTS_PER_ROW = 4;

Modified: trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/WritableGISResolver.java
===================================================================
--- trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/WritableGISResolver.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/WritableGISResolver.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -397,7 +397,7 @@
   }
 
   /**
-   * Resolves the constraint: $var <rdf:type> <geo:Point> <model>
+   * Resolves the constraint: $var &lt;rdf:type&gt; &lt;geo:Point&gt; <model>
    *
    * @param var Variable
    * @param model long
@@ -441,7 +441,7 @@
   }
 
   /**
-   * Resolves the constraint: $var <geo:lat> $lat <model>
+   * Resolves the constraint: $var &lt;geo:lat&gt; $lat <model>
    *
    * @param var Variable
    * @param lat Variable
@@ -463,7 +463,7 @@
   }
 
   /**
-   * Resolves the constraint: $var <geo:long> $lon <model>
+   * Resolves the constraint: $var &lt;geo:long&gt; $lon <model>
    *
    * @param var Variable
    * @param lon Variable

Modified: trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/tools/GEO.java
===================================================================
--- trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/tools/GEO.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-gis/java/org/mulgara/resolver/gis/tools/GEO.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -38,15 +38,15 @@
  *
  * <p>RDF Vocabulary for describing points:
  * <code>
- * <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
+ * &lt;rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
  *       xmlns:geo="http://www.w3.org/2003/01/geo/wgs84_pos#">
- *   <geo:Point>
- *     <geo:lat>54.5722</geo:lat>
- *     <geo:long>0.014024</geo:long>
- *   </geo:Point>
- * </rdf:RDF>
+ *   &lt;geo:Point&gt;
+ *     &lt;geo:lat&gt;54.5722&lt;/geo:lat&gt;
+ *     &lt;geo:long&gt;0.014024&lt;/geo:long&gt;
+ *   &lt;/geo:Point&gt;
+ * &lt;/rdf:RDF&gt;
  *
- * (eg. <geo:Point geo:lat="54.5722" geo:long="0.014024"/> )
+ * (eg. &lt;geo:Point geo:lat="54.5722" geo:long="0.014024"/&gt; )
  * </code>
  *
  * @created 2004-11-17

Modified: trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/FullTextStringIndex.java
===================================================================
--- trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/FullTextStringIndex.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/FullTextStringIndex.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -149,7 +149,8 @@
    * Create a new FullTextStringIndex object.
    *
    * @param indexerCache the indexer-cache to use to get the indexers
-   * @param newEnableReverseTextIndex true if you can begin Lucene queries with wildcards.
+   * @param forWrites whether to acquire an index writer
+   * @param enableReverseTextIndex true if you can begin Lucene queries with wildcards.
    * @throws FullTextStringIndexException on failure to obtain an index reader or writer
    */
   public FullTextStringIndex(LuceneIndexerCache indexerCache, boolean forWrites,
@@ -657,7 +658,7 @@
    *
    * @param subject   the subject; may be null
    * @param predicate the predicate; may be null
-   * @param literal   literal to be searched via the analyzer; may be null
+   * @param object   literal to be searched via the analyzer; may be null
    * @return the maximum number of documents
    * @throws FullTextStringIndexException if an error occurred
    */

Modified: trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/LuceneTransformer.java
===================================================================
--- trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/LuceneTransformer.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-lucene/java/org/mulgara/resolver/lucene/LuceneTransformer.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -44,9 +44,9 @@
  * A query transformer for lucene. This accept constraints like in the following example:
  * <pre>
  *   select $x $score from ... where
- *     $x <mulgara:search> $s in <lucene> and
- *     $s <foo> 'story' in <lucene> and
- *     $s <mulgara:score> $score in <lucene>
+ *     $x &lt;mulgara:search&gt; $s in &lt;lucene&gt; and
+ *     $s &lt;foo&gt; 'story' in &lt;lucene&gt; and
+ *     $s &lt;mulgara:score&gt; $score in &lt;lucene&gt;
  * </pre>
  *
  * @created 2008-09-28
@@ -64,8 +64,8 @@
    * Create a new tranformer to rewrite lucene queries.
    *
    * @param modelTypeURI  the uri of the lucene model type
-   * @param searchPredURI the uri of the search predicate
-   * @param scorePredURI  the uri of the score predicate
+   * @param searchPredUri the uri of the search predicate
+   * @param scorePredUri  the uri of the score predicate
    */
   public LuceneTransformer(URI modelTypeURI, URI searchPredUri, URI scorePredUri) {
     this.modelTypeURI = modelTypeURI;

Modified: trunk/src/jar/resolver-spi/java/org/mulgara/content/ContentHandler.java
===================================================================
--- trunk/src/jar/resolver-spi/java/org/mulgara/content/ContentHandler.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-spi/java/org/mulgara/content/ContentHandler.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -47,8 +47,7 @@
  *   Technology Inc</a>
  * @licence <a href="{@docRoot}/../../LICENCE">Mozilla Public License v1.1</a>
  */
-public interface ContentHandler
-{
+public interface ContentHandler {
   /**
    * Parse {@link Content} into {@link Statements}.
    *

Modified: trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/BackupRestoreSession.java
===================================================================
--- trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/BackupRestoreSession.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/BackupRestoreSession.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -11,7 +11,7 @@
  * under the License.
  *
  * This file is an original work developed by Andrae Muys
- * Copyright (c) 2008 Andrae Muys <andrae at muys.id.au>
+ * Copyright (c) 2008 Andrae Muys andrae at muys.id.au
  * All Rights Reserved.
  */
 package org.mulgara.resolver.spi;

Modified: trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/ReresolvableResolution.java
===================================================================
--- trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/ReresolvableResolution.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/ReresolvableResolution.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -52,7 +52,7 @@
   /**
    * Reresolve resolution given additional knowledge derived from other constraints in the query.
    *
-   * Note: assign/x and Resolution <=> assign/x and Resolution.reresolve(x).
+   * Note: assign/x and Resolution &lt;=&gt; assign/x and Resolution.reresolve(x).
    *
    * Reresolve is analogous to beta-reduction in the lambda calculus, it is defined as
    * project({this.vars - bindings.vars}, restrict(bindings, this))

Modified: trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/SystemResolver.java
===================================================================
--- trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/SystemResolver.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/SystemResolver.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -53,7 +53,7 @@
   /**
    * Informs the system resolver of the metadata it uses for managing data.
    * @param systemGraphNode The node for the system graph.
-   * @param rdfTypeNode The node representing <rdf:type>.
+   * @param rdfTypeNode The node representing rdf:type.
    * @param systemGraphTypeNode The node used for the SystemResolver graph type.
    */
   public void initializeSystemNodes(long systemGraphNode, long rdfTypeNode, long systemGraphTypeNode);

Modified: trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/TuplesContext.java
===================================================================
--- trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/TuplesContext.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-spi/java/org/mulgara/resolver/spi/TuplesContext.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -53,7 +53,7 @@
   /**
    * Creates a new context for processing a filter, based on an existing context and a new Tuples.
    * @param tuples The variables and bindings to use in filtering. Not all variables need be bound.
-   * @param TuplesContext An existing context to get session information from.
+   * @param otherContext An existing context to get session information from.
    */
   public TuplesContext(Tuples tuples, TuplesContext otherContext) {
     this.tuples = tuples;

Modified: trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa/TripleAVLFile.java
===================================================================
--- trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa/TripleAVLFile.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa/TripleAVLFile.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -2286,7 +2286,7 @@
        * Constructs the Tuples to come from the store.
        * @param startTriple The first triple for this tuples.
        * @param endTriple The first triple pattern that is NOT part of this tuples.
-       *                  This may not appear in the store, but if anything is <= this triple
+       *                  This may not appear in the store, but if anything is &lt;= this triple
        *                  then it is NOT in the tuples.
        * @param prefixLength The number of elements used to identify the requires triples.
        * @throws IOException If there was an I/O error accessing the triples data in the store.

Modified: trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/LiteralGraphTuples.java
===================================================================
--- trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/LiteralGraphTuples.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/LiteralGraphTuples.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -39,7 +39,7 @@
 
   /**
    * Creates a new literal tuples containing graphs.
-   * @param sorted
+   * @param graph The localnode for the graph to be represented.
    */
   public LiteralGraphTuples(long graph) {
     super(META_NAMES, true);

Modified: trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/XA11StatementStoreImpl.java
===================================================================
--- trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/XA11StatementStoreImpl.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-store/java/org/mulgara/store/statement/xa11/XA11StatementStoreImpl.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -1501,9 +1501,9 @@
     /**
      * Iterates over all graphs, finding requested tuples, and joining all the results together into a single tuples.
      * @param variableMask Pre-calculated from the bound node parameters.
-     * @param node0 The bound value for node0, or < 0 if not bound.
-     * @param node1 The bound value for node1, or < 0 if not bound.
-     * @param node2 The bound value for node2, or < 0 if not bound.
+     * @param node0 The bound value for node0, or &lt; 0 if not bound.
+     * @param node1 The bound value for node1, or &lt; 0 if not bound.
+     * @param node2 The bound value for node2, or &lt; 0 if not bound.
      * @return A StoreTuples with all the intermediate tuples appended.
      * @throws StatementStoreException On an error accessing the store.
      */
@@ -1770,7 +1770,7 @@
    * @see org.mulgara.store.xa.XAStatementStore#initializeSystemNodes(long, long, long)
    * Set the various system graph nodes. These may only be set once, but will allow duplicate calls if the values are the same.
    * @param systemGraphNode The new system graph node.
-   * @param rdfTypeNode The node for <rdf:graph>.
+   * @param rdfTypeNode The node for rdf:graph.
    * @param systemGraphTypeNode The node for the system graph type.
    */
   public void initializeSystemNodes(long systemGraphNode, long rdfTypeNode, long systemGraphTypeNode) {

Modified: trunk/src/jar/resolver-url/java/org/mulgara/resolver/url/URLStatements.java
===================================================================
--- trunk/src/jar/resolver-url/java/org/mulgara/resolver/url/URLStatements.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-url/java/org/mulgara/resolver/url/URLStatements.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -61,7 +61,7 @@
  * Parses an {@link InputStream} into {@link Statements}.
  *
  * This particular implementation is complicated by the need to adapt the Jena
- * ARP RDF/XML <q>push</q> parser to be a <q>pull</q> parser instead.
+ * ARP RDF/XML &quot;push&quot; parser to be a &quot;pull&quot; parser instead.
  *
  * @created 2004-04-02
  * @author <a href="http://staff.pisoftware.com/raboczi">Simon Raboczi</a>

Modified: trunk/src/jar/resolver-xsd/java/org/mulgara/resolver/xsd/IntervalConstraint.java
===================================================================
--- trunk/src/jar/resolver-xsd/java/org/mulgara/resolver/xsd/IntervalConstraint.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/resolver-xsd/java/org/mulgara/resolver/xsd/IntervalConstraint.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -321,7 +321,7 @@
 
   /**
    * @return a legible representation of the constraint, for instance
-   *   <pre>[1.5 < $x <= 2.5]</pre>
+   *   <code>[1.5 &lt; $x &lt;= 2.5]</code>
    */
   public String toString() {
     StringBuffer buffer = new StringBuffer("[");

Modified: trunk/src/jar/server/java/org/mulgara/server/AbstractServer.java
===================================================================
--- trunk/src/jar/server/java/org/mulgara/server/AbstractServer.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server/java/org/mulgara/server/AbstractServer.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -218,8 +218,9 @@
 
   /**
    * Allow access by subclasses to the session factory.
-   * @return <code>null</code> in the {@link #UNINITIALIZED} state, the {@link SessionFactory}
-   *         instance otherwise
+   * @return <code>null</code> in the
+   *         {@link org.mulgara.server.ServerMBean.ServerState#UNINITIALIZED} state,
+   *         the {@link SessionFactory} instance otherwise
    */
   public SessionFactory getSessionFactory() {
     return sessionFactory;
@@ -286,7 +287,7 @@
 
   /**
    * Make the server available over the network. If successful the new state
-   * should be {@link #STARTED}.
+   * should be {@link org.mulgara.server.ServerMBean.ServerState#STARTED}.
    * @throws IllegalStateException The service is not configured, or is already running.
    * @throws Exception A service specific error occurred during startup.
    */
@@ -335,7 +336,7 @@
 
   /**
    * Make the server unavailable over the network. If successful the new state
-   * will be {@link #STOPPED}.
+   * will be {@link org.mulgara.server.ServerMBean.ServerState#STOPPED}.
    * @throws IllegalStateException If the server is not running
    * @throws Exception There was a service specific error in shutting down.
    */

Modified: trunk/src/jar/server/java/org/mulgara/server/ServerInfo.java
===================================================================
--- trunk/src/jar/server/java/org/mulgara/server/ServerInfo.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server/java/org/mulgara/server/ServerInfo.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -93,7 +93,7 @@
    * Session session = EmbeddedMulgaraServer.getLocalSessionFactory().newSession();
    * ItqlInterpreterBean interpreter = new ItqlInterpreterBean(session);
    * String answer = interpreter.executeQueryToString(
-   *     "select $s $p $o from <rmi://localhost/server1#model> where $s $p $o;");
+   *     "select $s $p $o from &lt;rmi://localhost/server1#model&gt; where $s $p $o;");
    * </pre>
    *
    * @return the local {@link org.mulgara.server.SessionFactory} of this

Modified: trunk/src/jar/server/java/org/mulgara/server/ServerMBean.java
===================================================================
--- trunk/src/jar/server/java/org/mulgara/server/ServerMBean.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server/java/org/mulgara/server/ServerMBean.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -130,8 +130,8 @@
    * using the {@link #init}, {@link #start}, {@link #stop} and {@link #destroy}
    * methods.
    *
-   * @return The current server state, always one of the values {@link
-   *      #UNINITIALIZED}, {@link #STOPPED} or {@link #STARTED}
+   * @return The current server state, always one of the values
+   *   {@link ServerState#UNINITIALIZED}, {@link ServerState#STOPPED} or {@link ServerState#STARTED}
    */
   public ServerState getState();
 

Modified: trunk/src/jar/server/java/org/mulgara/server/ServiceListingServlet.java
===================================================================
--- trunk/src/jar/server/java/org/mulgara/server/ServiceListingServlet.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server/java/org/mulgara/server/ServiceListingServlet.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -43,7 +43,7 @@
   /**
    * Creates the servlet for listing the given paths.
    * @param servicePaths The names of all the services.
-   * @param servername The name of the current server.
+   * @param defaultPath The default path to use when not using this servlet.
    */
   public ServiceListingServlet(Map<String,String> servicePaths, String defaultPath) throws IOException {
     this.servicePaths = servicePaths;

Modified: trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteSessionWrapperSession.java
===================================================================
--- trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteSessionWrapperSession.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteSessionWrapperSession.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -112,7 +112,7 @@
   /**
    * Wrap a remote session to make it appear as a local session.
    * @param remoteSession the wrapped remote session.
-   * @param The server the session is connecting to.
+   * @param serverURI The server the session is connecting to.
    * @throws IllegalArgumentException if <var>remoteSession</var> is <code>null</code>
    */
   protected RemoteSessionWrapperSession(RemoteSession remoteSession, URI serverURI) {

Modified: trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteXAResourceWrapperXAResource.java
===================================================================
--- trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteXAResourceWrapperXAResource.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RemoteXAResourceWrapperXAResource.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -47,9 +47,9 @@
   private RemoteXAResource remoteResource;
 
   /**
-   * Wrap a {@link RemoteAnswer} to make it into an {@link Answer}.
+   * Wrap a {@link RemoteAnswer} to make it into an {@link org.mulgara.query.Answer}.
    *
-   * @param remoteAnswer  the instance to wrap
+   * @param remoteResource  the instance to wrap
    * @throws IllegalArgumentException  if <var>remoteAnswer</var> is <code>null</code>
    */
   RemoteXAResourceWrapperXAResource(RemoteXAResource remoteResource) throws RemoteException {

Modified: trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RmiSessionFactory.java
===================================================================
--- trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RmiSessionFactory.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/server-rmi/java/org/mulgara/server/rmi/RmiSessionFactory.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -170,8 +170,8 @@
   }
 
   /**
-   * Factory method. The session generated will be an unauthenticated (<q>guest
-   * </q>) session. To authenticate it, the {@link Session#login} method must be
+   * Factory method. The session generated will be an unauthenticated (&quot;guest
+   * &quot;) session. To authenticate it, the {@link Session#login} method must be
    * used.
    *
    * @return an unauthenticated session

Modified: trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/AbstractSPObject.java
===================================================================
--- trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/AbstractSPObject.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/AbstractSPObject.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -209,7 +209,7 @@
    * Utility for long comparisons
    * @param a The first long value
    * @param b The second long value
-   * @return +1 if a > b, -1 if a < b, 0 if a == b
+   * @return +1 if a &gt; b, -1 if a &lt; b, 0 if a == b
    */
   public static final int compare(long a, long b) {
     return a == b ? 0 : (a < b ? -1 : 1);

Modified: trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/AbstractSPGDateTime.java
===================================================================
--- trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/AbstractSPGDateTime.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/AbstractSPGDateTime.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -156,7 +156,7 @@
    * Compares this gDay representation to another object to see if they are
    * the same values.  First the typing is checked and then the value.
    * @param object The object we are comparing against
-   * @return Whether the gDay value is greater than (> 0), less than (< 0), or equal to (0) this value
+   * @return Whether the gDay value is greater than (&gt; 0), less than (&lt; 0), or equal to (0) this value
    */
   public int compareTo(SPObject object) {
     // Compare types.
@@ -310,7 +310,7 @@
 
   /**
    * Calculate an encoding byte for the timezone.
-   * @return A code for the presence of a timezone.
+   * Sets a code for the presence of a timezone.
    */
   private void setTzByte(byte tzData) {
     tz = null;
@@ -345,7 +345,7 @@
      * @param d2 The second gDay's byte buffer
      * @param d2Size The number of bytes to compare
      *
-     * @return Whether the first prefix is greater than (> 0), less than (< 0),
+     * @return Whether the first prefix is greater than (&gt; 0), less than (&lt; 0),
      *         or equal to (0) the other
      */
     public int comparePrefix(ByteBuffer d1, ByteBuffer d2, int d2Size) {
@@ -358,8 +358,8 @@
      *
      * @param d1 The first byte buffer
      * @param d2 The second byte buffer
-     * @return Whether the first buffer's content is greater than (> 0), less
-     *         than (< 0), or equal to (0) the other
+     * @return Whether the first buffer's content is greater than (&gt; 0), less
+     *         than (&lt; 0), or equal to (0) the other
      */
     public int compare(ByteBuffer d1, int st1, ByteBuffer d2, int st2) {
       int c = AbstractSPObject.compare(d1.getLong(), d2.getLong());

Modified: trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDateTimeImpl.java
===================================================================
--- trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDateTimeImpl.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDateTimeImpl.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -70,7 +70,7 @@
 
   /**
    * Creates a dateTime using a LexicalDateTime.
-   * @param date A {@link java.util.Date} representing the dateTime.
+   * @param dateTime A {@link java.util.Date} representing the dateTime.
    */
   SPDateTimeImpl(LexicalDateTime dateTime) {
     super(TYPE_ID, TYPE_URI);

Modified: trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDecimalImpl.java
===================================================================
--- trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDecimalImpl.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDecimalImpl.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -302,7 +302,7 @@
     }
 
     /**
-     * @see org.mulgara.store.stringpool.SPComparator#compare(java.nio.ByteBuffer, java.nio.ByteBuffer)
+     * @see org.mulgara.store.stringpool.SPComparator#compare(ByteBuffer, int, ByteBuffer, int)
      * This comparator WILL compare between xsd:decimal and the extending types
      */
     public int compare(ByteBuffer d1, int subtypeId1, ByteBuffer d2, int subtypeId2) {
@@ -452,7 +452,7 @@
     }
 
     /**
-     * @see org.mulgara.store.stringpool.SPComparator#compare(java.nio.ByteBuffer, java.nio.ByteBuffer)
+     * @see org.mulgara.store.stringpool.SPComparator#compare(ByteBuffer, int, ByteBuffer, int)
      * This comparator WILL compare between xsd:decimal and the extending types
      */
     public int compare(ByteBuffer d1, int subtypeId1, ByteBuffer d2, int subtypeId2) {

Modified: trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDoubleImpl.java
===================================================================
--- trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDoubleImpl.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPDoubleImpl.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -170,7 +170,7 @@
 
 
   /**
-   * @see org.mulgara.store.stringpool.xa.SPNumber#numericalCompareTo(java.math.BigInteger)
+   * @see org.mulgara.store.stringpool.xa.SPNumber#numericalCompareTo(BigDecimal)
    */
   public int numericalCompareTo(BigDecimal n) {
     double dn = n.doubleValue();

Modified: trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPNumber.java
===================================================================
--- trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPNumber.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool/java/org/mulgara/store/stringpool/xa/SPNumber.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -33,14 +33,14 @@
 
   /**
    * Compare the value of current object to a BigInteger.
-   * @param n The double to compare to.
+   * @param d The double to compare to.
    * @return -1 if the value of this object is smaller, +1 if larger, 0 if equal.
    */
   public int numericalCompareTo(double d);
 
   /**
    * Compare the current object to a long.
-   * @param n The long to compare to.
+   * @param l The long to compare to.
    * @return -1 if the value of this object is smaller, +1 if larger, 0 if equal.
    */
   public int numericalCompareTo(long l);

Modified: trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/BlankNodeAllocator.java
===================================================================
--- trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/BlankNodeAllocator.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/BlankNodeAllocator.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -152,8 +152,8 @@
 
   /**
    * Convert a blank node code to a counter value.
-   * @param blankGNode The blank node value.
-   * @return A value with the blank node bit turned off.
+   * @param counter The blank node value, with the blank node bit turned off.
+   * @return A value with the blank node bit turned on.
    */
   public static final long counterToNode(long counter) {
     return counter | BLANK_NODE_BIT;

Modified: trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/DataStruct.java
===================================================================
--- trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/DataStruct.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/DataStruct.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -185,7 +185,7 @@
 
   /**
    * Write this object to a file. This will update the gNode for the object.
-   * @param file The file to write to.
+   * @param fc The file channed of the file to write to.
    * @return The number of bytes written.
    * @throws IOException Caused by errors writing to the file.
    */
@@ -220,7 +220,6 @@
   /**
    * Writes this object to the payload in an AVLNode.
    * @param node The node to write to.
-   * @param gNode The gNode this object is associated with.
    */
   public void writeTo(AVLNode node) {
     node.putPayloadByte(IDX_TYPE_CATEGORY_B, typeCategoryId);

Modified: trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/XA11StringPoolImpl.java
===================================================================
--- trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/XA11StringPoolImpl.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-stringpool-xa11/java/org/mulgara/store/stringpool/xa11/XA11StringPoolImpl.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -987,7 +987,6 @@
 
     /**
      * Clears out a block holding metaroot information.
-     * @param block The block to clear.
      */
     public Metaroot clear() {
       block.putInt(IDX_MAGIC, FILE_MAGIC);
@@ -1029,7 +1028,7 @@
 
     /**
      * Reads metaroot information out of a block and into this structure.
-     * @param block The block to read.
+     * @param currentPool Unused.
      */
     public Metaroot read(XA11StringPoolImpl currentPool) throws IOException {
       valid = block.getInt(IDX_VALID);
@@ -1229,7 +1228,6 @@
     /**
      * A constructor from a block on disk.
      * @param b The block to read from.
-     * @param offset The offset into the block to read.
      * @throws IOException Caused by an IO error reading the block.
      */
     TreePhase(Block b) throws IOException {
@@ -1249,8 +1247,8 @@
 
     /**
      * Inserts a node into the tree, mapping data onto a long.
-     * @param spObject The Data to use as the index key.
-     * @param gNode The long to map the data to.
+     * @param objectData The node to insert.
+     * @param spComparator The comparison mechanism to use to search the tree.
      */
     public void put(DataStruct objectData, SPComparator spComparator) throws StringPoolException {
       if (objectData.getGNode() < NodePool.MIN_NODE) throw new IllegalArgumentException("gNode < MIN_NODE. Object = " + objectData);
@@ -1714,13 +1712,14 @@
        * Constructs a GNodeTuplesImpl that represents nodes in the AVLFile
        * index that range from lowAVLNode up to but not including the node with
        * ID highAVLNodeId.
-       * @param avlFilePhase The phase this tuples applies to.
        * @param typeCategory The type of data this Tuples returns.
        * @param typeId The ID of the data being returned.
+       * @param lowValue The lower bound of the sequence in this tuples.
+       * @param highValue The upper bound of the sequence in this tuples.
        * @param lowAVLNode the AVLNode that has the first graph node that is
-       * included in the Tuples.
+       *        included in the Tuples.
        * @param highAVLNodeId the ID of the AVLNode that has the first graph
-       * node that is not included in the Tuples.
+       *        node that is not included in the Tuples.
        */
       GNodeTuplesImpl(
           SPObject.TypeCategory typeCategory, int typeId,

Modified: trunk/src/jar/store-xa/java/org/mulgara/store/xa/XAStatementStore.java
===================================================================
--- trunk/src/jar/store-xa/java/org/mulgara/store/xa/XAStatementStore.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/store-xa/java/org/mulgara/store/xa/XAStatementStore.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -87,7 +87,7 @@
   /**
    * Informs the statement store of the metadata it uses for managing data.
    * @param systemGraphNode The node for the system graph.
-   * @param rdfTypeNode The node representing <rdf:type>.
+   * @param rdfTypeNode The node representing rdf:type.
    * @param systemGraphTypeNode The node used for the SystemResolver graph type.
    */
   public void initializeSystemNodes(long systemGraphNode, long rdfTypeNode, long systemGraphTypeNode);

Modified: trunk/src/jar/tuples/java/org/mulgara/store/tuples/LeftJoin.java
===================================================================
--- trunk/src/jar/tuples/java/org/mulgara/store/tuples/LeftJoin.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/tuples/java/org/mulgara/store/tuples/LeftJoin.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -42,7 +42,7 @@
  * RHS for matching rows.  For efficient searching, the RHS must be
  * ordered according to the matching variables.  This class is not responsible for
  * ensuring the sort order of the RHS; that responsibility falls to
- * {@link TuplesOperations#optionalJoin(Tuples, Tuples)}.
+ * {@link TuplesOperations#optionalJoin(Tuples, Tuples, Filter, QueryEvaluationContext)}.
  *
  * @created 2008-04-04
  * @author <a href="mailto:pgearon at users.sourceforge.net">Paul Gearon</a>

Modified: trunk/src/jar/tuples/java/org/mulgara/store/tuples/PartialColumnComparator.java
===================================================================
--- trunk/src/jar/tuples/java/org/mulgara/store/tuples/PartialColumnComparator.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/tuples/java/org/mulgara/store/tuples/PartialColumnComparator.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -45,7 +45,7 @@
    * Compares the LHS and RHS parameters as tuples which are to be compared in column order.
    * @param lhs The left hand side operand.
    * @param rhs The right hand side operand.
-   * @return -1 if lhs<rhs, +1 if lhs>rhs, 0 otherwise.
+   * @return -1 if lhs &lt; rhs, +1 if lhs &gt; rhs, 0 otherwise.
    */
   public int compare(long[] lhs, long[] rhs) {
     if (lhs.length != rhs.length) throw new IllegalArgumentException("Tuples must be the same length for comparison.");
@@ -65,7 +65,7 @@
    * The lhs may be shorter than the rhs, as it can be for a beforeFirst search.
    * @param lhs An array to be treated as a Tuples row.
    * @param rhs A Tuples, with the current row to be compared.
-   * @return -1 if lhs<rhs, +1 if lhs>rhs, 0 otherwise.
+   * @return -1 if lhs &lt; rhs, +1 if lhs &gt; rhs, 0 otherwise.
    * @throws TuplesException If there is an error accessing the Tuples.
    */
   public int compare(long[] lhs, Tuples rhs) throws TuplesException {
@@ -98,7 +98,7 @@
    * Compares in column order the current rows of two Tuples.
    * @param lhs A Tuples with the current row to be compared.
    * @param rhs A Tuples with the current row to be compared.
-   * @return -1 if lhs<rhs, +1 if lhs>rhs, 0 otherwise.
+   * @return -1 if lhs &lt; rhs, +1 if lhs &gt; rhs, 0 otherwise.
    * @throws TuplesException If there is an error accessing the Tuples.
    */
   public int compare(Tuples lhs, Tuples rhs) throws TuplesException {

Modified: trunk/src/jar/tuples/java/org/mulgara/store/tuples/TuplesOperations.java
===================================================================
--- trunk/src/jar/tuples/java/org/mulgara/store/tuples/TuplesOperations.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/tuples/java/org/mulgara/store/tuples/TuplesOperations.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -422,7 +422,7 @@
 
   /**
    * Flattens any nested joins to allow polyadic join operations.
-   * @param A list of Tuples which may in turn be nested operations.
+   * @param operands A list of Tuples which may in turn be nested operations.
    * @return A flattened list of flattened Tuples. 
    */
   private static List<Tuples> flattenOperands(List<? extends Tuples> operands) throws TuplesException {

Modified: trunk/src/jar/util/java/org/mulgara/util/LongMapper.java
===================================================================
--- trunk/src/jar/util/java/org/mulgara/util/LongMapper.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/util/java/org/mulgara/util/LongMapper.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -18,7 +18,7 @@
 
 /**
  * Objects of this type are used for mapping longs to longs. This can be easily met
- * with a Map<Long,Long>, or an IntFile, but this interface abstracts the interface
+ * with a Map&lt;Long,Long&gt;, or an IntFile, but this interface abstracts the interface
  * to allow manipulation of the number space if this is more efficient.
  *
  * @created Sep 26, 2008

Modified: trunk/src/jar/util/java/org/mulgara/util/QueryParams.java
===================================================================
--- trunk/src/jar/util/java/org/mulgara/util/QueryParams.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/util/java/org/mulgara/util/QueryParams.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -161,9 +161,8 @@
   }
 
   /**
-   * Retrieves a value for a given parameter.
-   * @param param The parameter name.
-   * @return The decoded string for this value.
+   * Retrieves the names of the parameters in this query.
+   * @return A set of the decoded parameter names.
    */
   public Set<String> getNames() {
     return params.keySet();

Modified: trunk/src/jar/util/java/org/mulgara/util/Rmi.java
===================================================================
--- trunk/src/jar/util/java/org/mulgara/util/Rmi.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/util/java/org/mulgara/util/Rmi.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -26,7 +26,7 @@
 /**
  * A utility to centralize the port handling for RMI objects.
  * This class is not set to handle different protocols. If this is needed, then the
- * super constructor {@link #UnicastRemoteObject(int,RMIClientSocketFactory,RMIServerSocketFactory)}
+ * super constructor for {@link UnicastRemoteObject} with socket factories
  * would need to be overridden.
  *
  * @created Sep 23, 2008

Modified: trunk/src/jar/util/java/org/mulgara/util/StringUtil.java
===================================================================
--- trunk/src/jar/util/java/org/mulgara/util/StringUtil.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/util/java/org/mulgara/util/StringUtil.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -47,7 +47,7 @@
  *
  * Copyright &copy; 2000 Plugged In Software Pty Ltd
  * (http://www.pisoftware.com/) <BR>
- * License: <LGPL by default, or as assigned>
+ * License: LGPL by default, or as assigned
  */
 public class StringUtil {
 

Modified: trunk/src/jar/util/java/org/mulgara/util/functional/C.java
===================================================================
--- trunk/src/jar/util/java/org/mulgara/util/functional/C.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/util/java/org/mulgara/util/functional/C.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -37,7 +37,7 @@
   /**
    * Creates a new list by applying an operator to each element of an initial list.
    * The final result meets the condition:
-   * <pre>result.get(i) == op( args.get(i) )   for 0 <= i < args.size()</pre>
+   * <pre>result.get(i) == op( args.get(i) )   for 0 &lt;= i &lt; args.size()</pre>
    * The operation in op may throw an exception.
    * @param <T1> The type of the elements in the arg list, which is also the
    *             argument type for the operation.
@@ -67,7 +67,7 @@
   /**
    * Creates a new list by applying an operator to each element of an initial list.
    * The final result meets the condition:
-   * <pre>result.get(i) == op( args.get(i) )   for 0 <= i < args.size()</pre>
+   * <pre>result.get(i) == op( args.get(i) )   for 0 &lt;= i &lt; args.size()</pre>
    * The operation in op may <em>not</em> throw an exception.
    * @param <T1> The type of the elements in the arg list, which is also the
    *             argument type for the operation.

Modified: trunk/src/jar/web/java/org/mulgara/webquery/QueryResponsePage.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/QueryResponsePage.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/QueryResponsePage.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -106,7 +106,7 @@
 
   /**
    * Construct this page for responsing to a particular request environment.
-   * @param reqThe request that asked for this page.
+   * @param req The request that asked for this page.
    * @param resp The structure for sending the page back to the client.
    * @param tagMap A map of tags to the values that should replace them
    */
@@ -170,9 +170,8 @@
 
   /**
    * Write a summary for the results of all the executed commands.
-   * @param out The stream to write the results to.
    * @param time The time taken to execute the commands, in milliseconds.
-   * @param size The number of commands executed.
+   * @param nrCommands The number of commands executed.
    */
   private void writeResultSummary(long time, int nrCommands) throws IOException {
     // short circuit if we don't have a summary
@@ -203,7 +202,6 @@
   /**
    * Write a simple result into a row of an existing table.
    * @param cmd The command executed to give this result.
-   * @param result The result for the command cmd.
    * @throws IOException Occurs for an error writing the response.
    */
   private void writeSimpleResult(Command cmd) throws IOException {

Modified: trunk/src/jar/web/java/org/mulgara/webquery/QueryServlet.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/QueryServlet.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/QueryServlet.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -127,9 +127,7 @@
 
 
   /**
-   * Creates the servlet for the named host.
-   * @param hostname The host name to use, or <code>null</code> if this is not known.
-   * @param servername The name of the current server.
+   * Creates the servlet for the current host.
    */
   public QueryServlet() {
     initialized = false;
@@ -608,7 +606,7 @@
 
   /**
    * Creates the default graph name for the sample data.
-   * @param The graph name that the user has already set.
+   * @param graphParam The graph name that the user has already set.
    * @return The default graph name to use when no graph has been set.
    */
   private String defaultGraph(String graphParam) {

Modified: trunk/src/jar/web/java/org/mulgara/webquery/html/Anchor.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/html/Anchor.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/html/Anchor.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -100,7 +100,7 @@
    * Creates an anchor with a given indent, and the text for a subelement.
    * @param indent The amount to indent by.
    * @param name The name of the anchor.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Anchor(int indent, String name, String text) {
     super(indent, new Text(text));
@@ -111,7 +111,7 @@
   /**
    * Creates an anchor with no initial indenting, and the text for a subelement.
    * @param name The name of the anchor.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Anchor(String name, String text) {
     this(-1, name, new Text(text));
@@ -122,7 +122,7 @@
    * Creates an anchor with a given indent, and the text for a subelement.
    * @param indent The amount to indent by.
    * @param ref The reference to point to.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Anchor(int indent, URL ref, String text) {
     super(indent, new Text(text));
@@ -133,7 +133,7 @@
   /**
    * Creates an anchor with no initial indenting, the text for a subelement.
    * @param ref The reference to point to.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Anchor(URL ref, String text) {
     this(-1, ref, new Text(text));
@@ -144,7 +144,7 @@
    * Creates an anchor with a given indent, and the text for a subelement.
    * @param indent The amount to indent by.
    * @param ref The reference to point to.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Anchor(int indent, URI ref, String text) {
     super(indent, new Text(text));
@@ -155,7 +155,7 @@
   /**
    * Creates an anchor with no initial indenting, and the text for a subelement.
    * @param ref The reference to point to.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Anchor(URI ref, String text) {
     this(-1, ref, new Text(text));

Modified: trunk/src/jar/web/java/org/mulgara/webquery/html/Break.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/html/Break.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/html/Break.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -51,7 +51,7 @@
 
 
   /**
-   * @see org.mulgara.webquery.html.HtmlElement#addAttr(org.mulgara.webquery.html.HtmlElement.Attr, java.lang.String)
+   * @see org.mulgara.webquery.html.HtmlElement#addAttr(Attr, Object)
    */
   public HtmlElement addAttr(Attr attr, String val) {
     if (attr != Attr.ID && attr != Attr.CLASS && attr != Attr.STYLE && attr != Attr.TITLE) {

Modified: trunk/src/jar/web/java/org/mulgara/webquery/html/HtmlElement.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/html/HtmlElement.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/html/HtmlElement.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -211,7 +211,7 @@
    * Create a string of spaces for indenting.
    * @param i The number of indents to use.
    * @return A string of spaces, equal to i * {@link #INDENT_CHARS}, or <code>null</code>
-   *         if i < 0.
+   *         if i &lt; 0.
    */
   private static String generateIndent(int i) {
     if (i < 0) return null;

Modified: trunk/src/jar/web/java/org/mulgara/webquery/html/Span.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/html/Span.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/html/Span.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -71,7 +71,7 @@
    * Creates a span with a given indent, and a list of sub elements.
    * @param indent The amount to indent by.
    * @param spanClass The name of the class for the span.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Span(int indent, String spanClass, String text) {
     super(indent, new Text(text));
@@ -82,7 +82,7 @@
   /**
    * Creates a span with no initial indenting, and a list of sub elements.
    * @param spanClass The name of the class for the span.
-   * @param test The text for a Text subElement.
+   * @param text The text for a Text subElement.
    */
   public Span(String spanClass, String text) {
     this(-1, spanClass, new Text(text));

Modified: trunk/src/jar/web/java/org/mulgara/webquery/html/TableRow.java
===================================================================
--- trunk/src/jar/web/java/org/mulgara/webquery/html/TableRow.java	2009-03-26 20:27:31 UTC (rev 1646)
+++ trunk/src/jar/web/java/org/mulgara/webquery/html/TableRow.java	2009-03-26 20:31:07 UTC (rev 1647)
@@ -55,7 +55,7 @@
 
   /**
    * Creates an row with no initial indenting, and a list of data elements.
-   * @param subElements a list of data elements to go inside this row.
+   * @param rowData an array of data elements to go inside this row.
    */
   public TableRow(HtmlElement... rowData) {
     this(0, rowData);




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