RYA-200 Removing findbugs:jsr305 Dependency

Closes #115


Project: http://git-wip-us.apache.org/repos/asf/incubator-rya/repo
Commit: http://git-wip-us.apache.org/repos/asf/incubator-rya/commit/a0a871fc
Tree: http://git-wip-us.apache.org/repos/asf/incubator-rya/tree/a0a871fc
Diff: http://git-wip-us.apache.org/repos/asf/incubator-rya/diff/a0a871fc

Branch: refs/heads/master
Commit: a0a871fcd1a1f5a3154cd40543a206789ffe1d2b
Parents: f3b1680
Author: Aaron Mihalik <[email protected]>
Authored: Mon Oct 17 15:20:39 2016 -0400
Committer: Aaron Mihalik <[email protected]>
Committed: Thu Oct 20 17:53:11 2016 -0400

----------------------------------------------------------------------
 common/rya.api/pom.xml                          |  4 ++
 .../apache/rya/api/client/BatchUpdatePCJ.java   |  4 +-
 .../org/apache/rya/api/client/CreatePCJ.java    |  4 +-
 .../org/apache/rya/api/client/DeletePCJ.java    |  4 +-
 .../rya/api/client/GetInstanceDetails.java      |  4 +-
 .../java/org/apache/rya/api/client/Install.java | 14 +++---
 .../client/InstanceDoesNotExistException.java   |  4 +-
 .../apache/rya/api/client/InstanceExists.java   |  4 +-
 .../apache/rya/api/client/ListInstances.java    |  4 +-
 .../api/client/PCJDoesNotExistException.java    |  4 +-
 .../org/apache/rya/api/client/RyaClient.java    |  8 +--
 .../rya/api/client/RyaClientException.java      |  4 +-
 .../org/apache/rya/api/instance/RyaDetails.java | 52 ++++++++++----------
 .../rya/api/instance/RyaDetailsRepository.java  |  4 +-
 .../api/instance/RyaDetailsToConfiguration.java |  4 +-
 .../rya/api/instance/RyaDetailsUpdater.java     |  6 +--
 .../AccumuloRyaInstanceDetailsRepository.java   |  4 +-
 .../accumulo/instance/RyaDetailsSerializer.java |  4 +-
 .../accumulo/utils/VisibilitySimplifier.java    |  4 +-
 .../mongodb/instance/MongoDetailsAdapter.java   |  4 +-
 .../MongoRyaInstanceDetailsRepository.java      |  4 +-
 .../api/client/accumulo/AccumuloCommand.java    |  4 +-
 .../accumulo/AccumuloConnectionDetails.java     |  8 +--
 .../api/client/accumulo/AccumuloCreatePCJ.java  |  4 +-
 .../api/client/accumulo/AccumuloDeletePCJ.java  |  4 +-
 .../accumulo/AccumuloGetInstanceDetails.java    |  4 +-
 .../api/client/accumulo/AccumuloInstall.java    |  4 +-
 .../client/accumulo/AccumuloInstanceExists.java |  4 +-
 .../client/accumulo/AccumuloListInstances.java  |  6 +--
 .../accumulo/AccumuloRyaClientFactory.java      |  4 +-
 .../api/client/accumulo/FluoClientFactory.java  |  4 +-
 .../external/PrecomputedJoinIndexer.java        |  4 +-
 .../external/PrecomputedJoinIndexerConfig.java  |  4 +-
 .../indexing/external/fluo/FluoPcjUpdater.java  |  4 +-
 .../external/fluo/FluoPcjUpdaterSupplier.java   |  4 +-
 .../external/tupleSet/ParsedQueryUtil.java      |  4 +-
 extras/rya.benchmark/pom.xml                    |  5 --
 .../benchmark/query/PCJOptimizerBenchmark.java  |  8 +--
 .../query/QueriesBenchmarkConfReader.java       |  4 +-
 .../rya/benchmark/query/QueryBenchmark.java     |  4 +-
 .../org/apache/rya/shell/SharedShellState.java  | 18 +++----
 .../apache/rya/shell/util/ConnectorFactory.java |  4 +-
 .../rya/shell/util/InstanceNamesFormatter.java  |  4 +-
 .../org/apache/rya/shell/util/JLinePrompt.java  |  4 +-
 .../apache/rya/shell/util/PasswordPrompt.java   |  4 +-
 .../rya/shell/util/RyaDetailsFormatter.java     |  4 +-
 .../org/apache/rya/shell/util/SparqlPrompt.java |  6 +--
 .../rya/indexing/pcj/storage/PcjMetadata.java   |  8 +--
 .../pcj/storage/PrecomputedJoinStorage.java     |  4 +-
 .../storage/accumulo/AccumuloPcjSerializer.java |  4 +-
 .../storage/accumulo/AccumuloPcjStorage.java    |  4 +-
 .../storage/accumulo/BindingSetConverter.java   |  4 +-
 .../accumulo/BindingSetStringConverter.java     |  4 +-
 .../storage/accumulo/PcjTableNameFactory.java   |  4 +-
 .../pcj/storage/accumulo/PcjTables.java         |  4 +-
 .../storage/accumulo/PcjVarOrderFactory.java    |  4 +-
 .../accumulo/ScannerBindingSetIterator.java     |  4 +-
 .../storage/accumulo/ShiftVarOrderFactory.java  |  4 +-
 .../pcj/storage/accumulo/VariableOrder.java     |  8 +--
 .../storage/accumulo/VisibilityBindingSet.java  |  4 +-
 .../VisibilityBindingSetStringConverter.java    |  4 +-
 .../pcj/update/PrecomputedJoinUpdater.java      |  4 +-
 .../rya/indexing/pcj/fluo/api/CreatePcj.java    |  4 +-
 .../rya/indexing/pcj/fluo/api/DeletePcj.java    |  4 +-
 .../indexing/pcj/fluo/api/GetQueryReport.java   | 14 +++---
 .../indexing/pcj/fluo/app/BindingSetRow.java    |  8 +--
 .../rya/indexing/pcj/fluo/app/FilterFinder.java |  4 +-
 .../pcj/fluo/app/FilterResultUpdater.java       |  4 +-
 .../pcj/fluo/app/FluoStringConverter.java       |  4 +-
 .../pcj/fluo/app/JoinResultUpdater.java         |  4 +-
 .../pcj/fluo/app/QueryResultUpdater.java        |  4 +-
 .../app/export/IncrementalResultExporter.java   |  4 +-
 .../IncrementalResultExporterFactory.java       |  4 +-
 .../pcj/fluo/app/export/ParametersBase.java     |  4 +-
 .../app/export/rya/RyaExportParameters.java     |  6 +--
 .../fluo/app/observers/BindingSetUpdater.java   |  4 +-
 .../pcj/fluo/app/query/CommonNodeMetadata.java  |  8 +--
 .../pcj/fluo/app/query/FilterMetadata.java      | 12 ++---
 .../indexing/pcj/fluo/app/query/FluoQuery.java  | 12 ++---
 .../pcj/fluo/app/query/FluoQueryColumns.java    |  4 +-
 .../fluo/app/query/FluoQueryMetadataDAO.java    |  4 +-
 .../pcj/fluo/app/query/JoinMetadata.java        | 12 ++---
 .../pcj/fluo/app/query/QueryMetadata.java       | 12 ++---
 .../fluo/app/query/SparqlFluoQueryBuilder.java  | 10 ++--
 .../app/query/StatementPatternMetadata.java     | 12 ++---
 .../pcj/fluo/client/PcjAdminClient.java         |  4 +-
 .../pcj/fluo/client/PcjAdminClientCommand.java  |  4 +-
 .../fluo/client/PcjAdminClientProperties.java   |  6 +--
 .../fluo/client/command/ListQueriesCommand.java |  4 +-
 .../fluo/client/command/LoadTriplesCommand.java |  4 +-
 .../fluo/client/command/NewQueryCommand.java    |  4 +-
 .../fluo/client/util/ParsedQueryRequest.java    |  8 +--
 .../fluo/client/util/QueryReportRenderer.java   |  4 +-
 .../indexing/pcj/fluo/client/util/Report.java   | 14 +++---
 pom.xml                                         | 27 ++++++++--
 95 files changed, 302 insertions(+), 282 deletions(-)
----------------------------------------------------------------------


http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/pom.xml
----------------------------------------------------------------------
diff --git a/common/rya.api/pom.xml b/common/rya.api/pom.xml
index a6f434d..acf394d 100644
--- a/common/rya.api/pom.xml
+++ b/common/rya.api/pom.xml
@@ -58,6 +58,10 @@ under the License.
             <artifactId>guava</artifactId>
         </dependency>
         <dependency>
+            <groupId>com.github.stephenc.findbugs</groupId>
+            <artifactId>findbugs-annotations</artifactId>
+        </dependency>
+        <dependency>
             <groupId>org.apache.hadoop</groupId>
             <artifactId>hadoop-common</artifactId>
         </dependency>

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/BatchUpdatePCJ.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/BatchUpdatePCJ.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/BatchUpdatePCJ.java
index 7fe77dd..e4b760e 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/BatchUpdatePCJ.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/BatchUpdatePCJ.java
@@ -18,12 +18,12 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Batch update a PCJ index.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface BatchUpdatePCJ {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/CreatePCJ.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/CreatePCJ.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/CreatePCJ.java
index 57b4633..45ec32a 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/CreatePCJ.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/CreatePCJ.java
@@ -18,12 +18,12 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Create a new PCJ within the target instance of Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface CreatePCJ {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/DeletePCJ.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/DeletePCJ.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/DeletePCJ.java
index 473361b..6dcfa5c 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/DeletePCJ.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/DeletePCJ.java
@@ -18,12 +18,12 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Deletes a PCJ from an instance of Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface DeletePCJ {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/GetInstanceDetails.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/GetInstanceDetails.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/client/GetInstanceDetails.java
index a51076b..411c430 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/client/GetInstanceDetails.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/client/GetInstanceDetails.java
@@ -18,7 +18,7 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import com.google.common.base.Optional;
 
@@ -27,7 +27,7 @@ import org.apache.rya.api.instance.RyaDetails;
 /**
  * Get configuration and maintenance information about a specific instance of 
Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface GetInstanceDetails {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/Install.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/Install.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/Install.java
index 2e91b00..2cbad7c 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/Install.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/Install.java
@@ -22,16 +22,16 @@ import static java.util.Objects.requireNonNull;
 
 import java.util.Objects;
 
-import javax.annotation.Nullable;
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
+import edu.umd.cs.findbugs.annotations.Nullable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
 
 import com.google.common.base.Optional;
 
 /**
  * Installs a new instance of Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface Install {
 
     /**
@@ -59,8 +59,8 @@ public interface Install {
     /**
      * Configures how an instance of Rya will be configured when it is 
installed.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class InstallConfiguration {
 
         private final boolean enableTableHashPrefix;
@@ -181,7 +181,7 @@ public interface Install {
         /**
          * Builds instances of {@link InstallConfiguration}.
          */
-        @ParametersAreNonnullByDefault
+// SEE RYA-211         @ParametersAreNonnullByDefault
         public static class Builder {
             private boolean enableTableHashPrefix = false;
             private boolean enableFreeTextIndex = false;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceDoesNotExistException.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceDoesNotExistException.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceDoesNotExistException.java
index be08e9a..03dd219 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceDoesNotExistException.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceDoesNotExistException.java
@@ -18,13 +18,13 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * One of the {@link RyaClient} commands could not execute because the 
connected
  * instance of Rya does not exist.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class InstanceDoesNotExistException extends RyaClientException {
     private static final long serialVersionUID = 1L;
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceExists.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceExists.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceExists.java
index 8b207d9..abfa278 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceExists.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/InstanceExists.java
@@ -18,12 +18,12 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Checks if an instance of Rya has been installed.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface InstanceExists {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/ListInstances.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/ListInstances.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/ListInstances.java
index f1396ad..427e603 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/ListInstances.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/ListInstances.java
@@ -20,12 +20,12 @@ package org.apache.rya.api.client;
 
 import java.util.List;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * List the names of the installed Rya instances.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface ListInstances {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/PCJDoesNotExistException.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/PCJDoesNotExistException.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/client/PCJDoesNotExistException.java
index f58e7b4..71430b9 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/client/PCJDoesNotExistException.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/client/PCJDoesNotExistException.java
@@ -18,13 +18,13 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * One of the {@link RyaClient} commands could not execute because the 
connected
  * instance of Rya does not have a PCJ matching the provided PCJ ID.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class PCJDoesNotExistException extends RyaClientException {
     private static final long serialVersionUID = 1L;
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClient.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClient.java 
b/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClient.java
index 8b52ad9..83b0756 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClient.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClient.java
@@ -20,14 +20,14 @@ package org.apache.rya.api.client;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
 
 /**
  * Provides access to a set of Rya functions.
  */
-@Immutable
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @Immutable
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaClient {
     // Administrative functions.
     private final Install install;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClientException.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClientException.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClientException.java
index 491fc35..e14fb84 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClientException.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/client/RyaClientException.java
@@ -18,12 +18,12 @@
  */
 package org.apache.rya.api.client;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * One of the {@link RyaClient} functions failed.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaClientException extends Exception {
     private static final long serialVersionUID = 1L;
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetails.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetails.java 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetails.java
index b56d255..648b2fd 100644
--- a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetails.java
+++ b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetails.java
@@ -28,9 +28,9 @@ import java.util.Map;
 import java.util.Map.Entry;
 import java.util.Objects;
 
-import javax.annotation.Nullable;
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
+import edu.umd.cs.findbugs.annotations.Nullable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
 
 import com.google.common.base.Optional;
 import com.google.common.collect.ImmutableMap;
@@ -38,8 +38,8 @@ import com.google.common.collect.ImmutableMap;
 /**
  * Details about how a Rya instance's state.
  */
-@Immutable
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @Immutable
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaDetails implements Serializable {
     private static final long serialVersionUID = 1L;
 
@@ -199,7 +199,7 @@ public class RyaDetails implements Serializable {
     /**
      * Builds instances of {@link RyaDetails}.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class Builder {
 
         // General metadata about the instance.
@@ -353,8 +353,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's Geospatial Index.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class GeoIndexDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 
@@ -397,8 +397,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's Temporal Index.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class TemporalIndexDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 
@@ -441,8 +441,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's Entity Centric Index.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class EntityCentricIndexDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 
@@ -485,8 +485,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's Free Text Index.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class FreeTextIndexDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 
@@ -529,8 +529,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's PCJ Index.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class PCJIndexDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 
@@ -618,7 +618,7 @@ public class RyaDetails implements Serializable {
         /**
          * Builds instance of {@link PCJIndexDetails).
          */
-        @ParametersAreNonnullByDefault
+// SEE RYA-211         @ParametersAreNonnullByDefault
         public static class Builder {
 
             private Boolean enabled = null;
@@ -707,8 +707,8 @@ public class RyaDetails implements Serializable {
          * Details about a Fluo Incremental PCJ application that has been 
installed
          * as part of this Rya instance.
          */
-        @Immutable
-        @ParametersAreNonnullByDefault
+// SEE RYA-211         @Immutable
+// SEE RYA-211         @ParametersAreNonnullByDefault
         public static class FluoDetails implements Serializable {
             private static final long serialVersionUID = 1L;
 
@@ -752,8 +752,8 @@ public class RyaDetails implements Serializable {
         /**
          * Details about a specific PCJ that is being maintained within the 
Rya instance.
          */
-        @Immutable
-        @ParametersAreNonnullByDefault
+// SEE RYA-211         @Immutable
+// SEE RYA-211         @ParametersAreNonnullByDefault
         public static class PCJDetails implements Serializable {
             private static final long serialVersionUID = 1L;
 
@@ -838,7 +838,7 @@ public class RyaDetails implements Serializable {
             /**
              * Builds instance of {@link PCJDetails}.
              */
-            @ParametersAreNonnullByDefault
+// SEE RYA-211             @ParametersAreNonnullByDefault
             public static class Builder {
 
                 private String id;
@@ -944,8 +944,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's Prospector statistics.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class ProspectorDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 
@@ -988,8 +988,8 @@ public class RyaDetails implements Serializable {
     /**
      * Details about a Rya instance's Join Selectivity statistics.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class JoinSelectivityDetails implements Serializable {
         private static final long serialVersionUID = 1L;
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsRepository.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsRepository.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsRepository.java
index c93bbce..a009ba7 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsRepository.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsRepository.java
@@ -19,13 +19,13 @@ package org.apache.rya.api.instance;
  * under the License.
  */
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Provides access to the {@link RyaDetails} information that describes
  * an instance of Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface RyaDetailsRepository {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsToConfiguration.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsToConfiguration.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsToConfiguration.java
index 6c31044..678ead2 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsToConfiguration.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsToConfiguration.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.instance;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.hadoop.conf.Configuration;
 import org.apache.log4j.Logger;
@@ -31,7 +31,7 @@ import com.google.common.base.Optional;
  * Used to fetch {@link RyaDetails} from a {@link RyaDetailsRepository} and
  * add them to the application's {@link Configuration}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaDetailsToConfiguration {
     private static final Logger log = 
Logger.getLogger(RyaDetailsToConfiguration.class);
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsUpdater.java
----------------------------------------------------------------------
diff --git 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsUpdater.java
 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsUpdater.java
index 8205c06..cc0c833 100644
--- 
a/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsUpdater.java
+++ 
b/common/rya.api/src/main/java/org/apache/rya/api/instance/RyaDetailsUpdater.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.instance;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
@@ -35,14 +35,14 @@ import 
org.apache.rya.api.instance.RyaDetailsUpdater.RyaDetailsMutator.CouldNotA
  * can be used in place of boilerplate code that handles the concurrent nature
  * of details updates.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaDetailsUpdater {
     private static final Logger log = 
LoggerFactory.getLogger(RyaDetailsUpdater.class);
 
     /**
      * Applies a mutation to a an instance of {@link RyaDetails}.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static interface RyaDetailsMutator {
 
         /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/AccumuloRyaInstanceDetailsRepository.java
----------------------------------------------------------------------
diff --git 
a/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/AccumuloRyaInstanceDetailsRepository.java
 
b/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/AccumuloRyaInstanceDetailsRepository.java
index 46d2a69..2479d3e 100644
--- 
a/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/AccumuloRyaInstanceDetailsRepository.java
+++ 
b/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/AccumuloRyaInstanceDetailsRepository.java
@@ -23,7 +23,7 @@ import static java.util.Objects.requireNonNull;
 
 import java.util.Map.Entry;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.AccumuloException;
 import org.apache.accumulo.core.client.AccumuloSecurityException;
@@ -60,7 +60,7 @@ import org.apache.rya.api.instance.RyaDetailsRepository;
  * style operations to synchronize writes to the object. On the downside, only
  * Java clients will work.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloRyaInstanceDetailsRepository implements 
RyaDetailsRepository {
 
     public static final String INSTANCE_DETAILS_TABLE_NAME = 
"instance_details";

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/RyaDetailsSerializer.java
----------------------------------------------------------------------
diff --git 
a/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/RyaDetailsSerializer.java
 
b/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/RyaDetailsSerializer.java
index ca130ee..3186d33 100644
--- 
a/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/RyaDetailsSerializer.java
+++ 
b/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/instance/RyaDetailsSerializer.java
@@ -27,7 +27,7 @@ import java.io.IOException;
 import java.io.ObjectInputStream;
 import java.io.ObjectOutputStream;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.rya.api.instance.RyaDetails;
 import 
org.apache.rya.api.instance.RyaDetailsRepository.RyaDetailsRepositoryException;
@@ -35,7 +35,7 @@ import 
org.apache.rya.api.instance.RyaDetailsRepository.RyaDetailsRepositoryExce
 /**
  * Serializes {@link RyaDetails} instances.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaDetailsSerializer {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/utils/VisibilitySimplifier.java
----------------------------------------------------------------------
diff --git 
a/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/utils/VisibilitySimplifier.java
 
b/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/utils/VisibilitySimplifier.java
index 173948c..838c1b2 100644
--- 
a/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/utils/VisibilitySimplifier.java
+++ 
b/dao/accumulo.rya/src/main/java/org/apache/rya/accumulo/utils/VisibilitySimplifier.java
@@ -20,7 +20,7 @@ package org.apache.rya.accumulo.utils;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.security.ColumnVisibility;
 
@@ -29,7 +29,7 @@ import com.google.common.base.Charsets;
 /**
  * Simplifies Accumulo visibility expressions.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class VisibilitySimplifier {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoDetailsAdapter.java
----------------------------------------------------------------------
diff --git 
a/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoDetailsAdapter.java
 
b/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoDetailsAdapter.java
index 0237b97..f80c055 100644
--- 
a/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoDetailsAdapter.java
+++ 
b/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoDetailsAdapter.java
@@ -25,7 +25,7 @@ import java.util.Date;
 import java.util.List;
 import java.util.Map.Entry;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import com.google.common.base.Optional;
 import com.google.common.base.Preconditions;
@@ -73,7 +73,7 @@ import 
org.apache.rya.api.instance.RyaDetails.TemporalIndexDetails;
  * }
  * </pre>
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class MongoDetailsAdapter {
     public static final String INSTANCE_KEY = "instanceName";
     public static final String VERSION_KEY = "version";

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoRyaInstanceDetailsRepository.java
----------------------------------------------------------------------
diff --git 
a/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoRyaInstanceDetailsRepository.java
 
b/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoRyaInstanceDetailsRepository.java
index cc37013..51f1faa 100644
--- 
a/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoRyaInstanceDetailsRepository.java
+++ 
b/dao/mongodb.rya/src/main/java/org/apache/rya/mongodb/instance/MongoRyaInstanceDetailsRepository.java
@@ -22,7 +22,7 @@ package org.apache.rya.mongodb.instance;
 import static com.google.common.base.Preconditions.checkNotNull;
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import com.mongodb.BasicDBObject;
 import com.mongodb.DB;
@@ -39,7 +39,7 @@ import 
org.apache.rya.mongodb.instance.MongoDetailsAdapter.MalformedRyaDetailsEx
  * An implementation of {@link RyaDetailsRepository} that stores a Rya
  * instance's {@link RyaDetails} in a Mongo document.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class MongoRyaInstanceDetailsRepository implements RyaDetailsRepository 
{
     private static final String INSTANCE_DETAILS_COLLECTION_NAME = 
"instance_details";
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCommand.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCommand.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCommand.java
index 2ccc46e..1ca8e19 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCommand.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCommand.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 
@@ -28,7 +28,7 @@ import org.apache.accumulo.core.client.Connector;
  * An abstract class that holds onto Accumulo access information. Extend this
  * when implementing a command that interacts with Accumulo.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public abstract class AccumuloCommand {
 
     private final AccumuloConnectionDetails connectionDetails;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloConnectionDetails.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloConnectionDetails.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloConnectionDetails.java
index ece329b..84deeee 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloConnectionDetails.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloConnectionDetails.java
@@ -20,14 +20,14 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
 
 /**
  * The information that the shell used to connect to Accumulo.
  */
-@Immutable
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @Immutable
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloConnectionDetails {
     private final String username;
     private final char[] password;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCreatePCJ.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCreatePCJ.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCreatePCJ.java
index b3718be..dcf1368 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCreatePCJ.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloCreatePCJ.java
@@ -21,7 +21,7 @@ package org.apache.rya.api.client.accumulo;
 import static com.google.common.base.Preconditions.checkNotNull;
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 import org.apache.rya.indexing.pcj.storage.PcjException;
@@ -59,7 +59,7 @@ import org.apache.rya.rdftriplestore.RyaSailRepository;
 /**
  * An Accumulo implementation of the {@link CreatePCJ} command.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloCreatePCJ extends AccumuloCommand implements CreatePCJ {
 
     private final GetInstanceDetails getInstanceDetails;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloDeletePCJ.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloDeletePCJ.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloDeletePCJ.java
index 757c076..ac9633f 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloDeletePCJ.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloDeletePCJ.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 import org.apache.rya.indexing.pcj.fluo.api.DeletePcj;
@@ -46,7 +46,7 @@ import 
org.apache.rya.api.instance.RyaDetails.PCJIndexDetails.PCJDetails.PCJUpda
 /**
  * An Accumulo implementation of the {@link DeletePCJ} command.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloDeletePCJ extends AccumuloCommand implements DeletePCJ {
 
     private static final Logger log = 
LoggerFactory.getLogger(AccumuloDeletePCJ.class);

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloGetInstanceDetails.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloGetInstanceDetails.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloGetInstanceDetails.java
index b6fb1ee..4a23df3 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloGetInstanceDetails.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloGetInstanceDetails.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 
@@ -39,7 +39,7 @@ import 
org.apache.rya.api.instance.RyaDetailsRepository.RyaDetailsRepositoryExce
 /**
  * An Accumulo implementation of the {@link GetInstanceDetails} command.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloGetInstanceDetails extends AccumuloCommand implements 
GetInstanceDetails {
 
     private final InstanceExists instanceExists;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstall.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstall.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstall.java
index 8030150..c873775 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstall.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstall.java
@@ -22,7 +22,7 @@ import static java.util.Objects.requireNonNull;
 
 import java.util.Date;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.AccumuloException;
 import org.apache.accumulo.core.client.AccumuloSecurityException;
@@ -60,7 +60,7 @@ import org.apache.rya.sail.config.RyaSailFactory;
  * An Accumulo implementation of the {@link Install} command.
  */
 
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloInstall extends AccumuloCommand implements Install {
 
     private final InstanceExists instanceExists;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstanceExists.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstanceExists.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstanceExists.java
index 17084fb..fce56d4 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstanceExists.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloInstanceExists.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 import org.apache.accumulo.core.client.admin.TableOperations;
@@ -33,7 +33,7 @@ import org.apache.rya.api.client.RyaClientException;
 /**
  * An Accumulo implementation of the {@link InstanceExists} command.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloInstanceExists extends AccumuloCommand implements 
InstanceExists {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloListInstances.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloListInstances.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloListInstances.java
index a6275bc..b35dc58 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloListInstances.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloListInstances.java
@@ -26,7 +26,7 @@ import java.util.Map.Entry;
 import java.util.regex.Matcher;
 import java.util.regex.Pattern;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 
@@ -37,7 +37,7 @@ import org.apache.rya.api.client.RyaClientException;
 /**
  * An Accumulo implementation of the {@link ListInstances} command.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloListInstances extends AccumuloCommand implements 
ListInstances {
 
     private final Pattern spoPattern = Pattern.compile("(.*)" + 
RdfCloudTripleStoreConstants.TBL_SPO_SUFFIX);
@@ -104,7 +104,7 @@ public class AccumuloListInstances extends AccumuloCommand 
implements ListInstan
     /**
      * Flags that are used to determine if a String is a Rya Instance name.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     private static class InstanceTablesFound {
         private boolean spoFound = false;
         private boolean ospFound = false;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloRyaClientFactory.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloRyaClientFactory.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloRyaClientFactory.java
index 335156e..44779ac 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloRyaClientFactory.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/AccumuloRyaClientFactory.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 
@@ -30,7 +30,7 @@ import org.apache.rya.api.client.RyaClient;
  * Constructs instance of {@link RyaClient} that are connected to instance of
  * Rya hosted by Accumulo clusters.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloRyaClientFactory {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/FluoClientFactory.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/FluoClientFactory.java
 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/FluoClientFactory.java
index d77c2ec..15c8785 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/FluoClientFactory.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/api/client/accumulo/FluoClientFactory.java
@@ -20,7 +20,7 @@ package org.apache.rya.api.client.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.fluo.api.client.FluoClient;
 import org.apache.fluo.api.client.FluoFactory;
@@ -29,7 +29,7 @@ import org.apache.fluo.api.config.FluoConfiguration;
 /**
  * Creates {@link FluoClient}s that are connected to a specific Fluo 
Application.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class FluoClientFactory {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexer.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexer.java
 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexer.java
index 37d3305..be55687 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexer.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexer.java
@@ -26,7 +26,7 @@ import java.util.Collections;
 import java.util.HashSet;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Connector;
 import org.apache.accumulo.core.client.MultiTableBatchWriter;
@@ -53,7 +53,7 @@ import 
org.apache.rya.indexing.external.fluo.PcjUpdaterSupplierFactory;
 /**
  * Updates the state of the Precomputed Join indices that are used by Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class PrecomputedJoinIndexer extends AbstractAccumuloIndexer {
     private static final Logger log = Logger
             .getLogger(PrecomputedJoinIndexer.class);

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexerConfig.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexerConfig.java
 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexerConfig.java
index a4f0c2d..4f25137 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexerConfig.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/PrecomputedJoinIndexerConfig.java
@@ -20,7 +20,7 @@ package org.apache.rya.indexing.external;
 
 import static com.google.common.base.Preconditions.checkNotNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.rya.api.persist.index.RyaSecondaryIndexer;
 import org.apache.rya.indexing.accumulo.ConfigUtils;
@@ -36,7 +36,7 @@ import com.google.common.base.Optional;
  * of {@link RyaSecondaryIndexer} to provide {@link PrecomputedJoinIndexer}
  * specific values.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class PrecomputedJoinIndexerConfig {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdater.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdater.java
 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdater.java
index c31ef02..7a73fba 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdater.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdater.java
@@ -22,7 +22,7 @@ import static 
com.google.common.base.Preconditions.checkNotNull;
 
 import java.util.Collection;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.log4j.Logger;
 import org.apache.rya.indexing.pcj.fluo.api.InsertTriples;
@@ -37,7 +37,7 @@ import org.apache.rya.api.domain.RyaStatement;
  * Updates the PCJ indices by forwarding the statement additions/removals to
  * a Fluo application.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class FluoPcjUpdater implements PrecomputedJoinUpdater {
     private static final Logger log = Logger.getLogger(FluoPcjUpdater.class);
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdaterSupplier.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdaterSupplier.java
 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdaterSupplier.java
index d0e4c23..98deac7 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdaterSupplier.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/fluo/FluoPcjUpdaterSupplier.java
@@ -30,7 +30,7 @@ import org.apache.fluo.api.client.FluoClient;
 import org.apache.fluo.api.client.FluoFactory;
 import org.apache.fluo.api.config.FluoConfiguration;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.rya.indexing.external.PrecomputedJoinIndexerConfig;
 import 
org.apache.rya.indexing.external.PrecomputedJoinIndexerConfig.PrecomputedJoinUpdaterType;
@@ -44,7 +44,7 @@ import com.google.common.base.Supplier;
 /**
  * Creates instances of {@link FluoPcjUpdater} using the values found in a 
{@link Configuration}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class FluoPcjUpdaterSupplier implements 
Supplier<PrecomputedJoinUpdater> {
 
     private final Supplier<Configuration> configSupplier;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/indexing/src/main/java/org/apache/rya/indexing/external/tupleSet/ParsedQueryUtil.java
----------------------------------------------------------------------
diff --git 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/tupleSet/ParsedQueryUtil.java
 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/tupleSet/ParsedQueryUtil.java
index 434afb0..cac68bc 100644
--- 
a/extras/indexing/src/main/java/org/apache/rya/indexing/external/tupleSet/ParsedQueryUtil.java
+++ 
b/extras/indexing/src/main/java/org/apache/rya/indexing/external/tupleSet/ParsedQueryUtil.java
@@ -22,7 +22,7 @@ import static 
com.google.common.base.Preconditions.checkNotNull;
 
 import java.util.concurrent.atomic.AtomicReference;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openrdf.query.algebra.Projection;
 import org.openrdf.query.algebra.helpers.QueryModelVisitorBase;
@@ -33,7 +33,7 @@ import com.google.common.base.Optional;
 /**
  * Utilities that help applications inspect {@link ParsedQuery} objects.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class ParsedQueryUtil {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.benchmark/pom.xml
----------------------------------------------------------------------
diff --git a/extras/rya.benchmark/pom.xml b/extras/rya.benchmark/pom.xml
index 5f39cc8..090a0aa 100644
--- a/extras/rya.benchmark/pom.xml
+++ b/extras/rya.benchmark/pom.xml
@@ -54,11 +54,6 @@
         
         <!-- Utils -->
         <dependency>
-            <groupId>com.google.code.findbugs</groupId>
-            <artifactId>jsr305</artifactId>
-        </dependency>
-        
-        <dependency>
             <groupId>com.google.guava</groupId>
             <artifactId>guava</artifactId>
         </dependency>

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/PCJOptimizerBenchmark.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/PCJOptimizerBenchmark.java
 
b/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/PCJOptimizerBenchmark.java
index b9d12d1..57a6b41 100644
--- 
a/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/PCJOptimizerBenchmark.java
+++ 
b/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/PCJOptimizerBenchmark.java
@@ -28,7 +28,7 @@ import java.util.Map;
 import java.util.Objects;
 import java.util.Queue;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openjdk.jmh.annotations.Benchmark;
 import org.openjdk.jmh.annotations.Param;
@@ -71,7 +71,7 @@ import org.apache.rya.indexing.pcj.matching.PCJOptimizer;
  * </pre>
  */
 @State(Scope.Thread)
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class PCJOptimizerBenchmark {
 
     /**
@@ -305,7 +305,7 @@ public class PCJOptimizerBenchmark {
     /**
      * The parameter values used by the benchmark. Used to lookup a benchmark' 
{@link BenchmarkValues}.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class BenchmarkParams {
         private final int numPCJs;
         private final int pcjSPCount;
@@ -369,7 +369,7 @@ public class PCJOptimizerBenchmark {
      * Holds onto the SPARQL query that will be optimized as well as the 
optimizers
      * that will be used to optimize the query.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class BenchmarkValues {
         private final TupleExpr query;
         private final PCJOptimizer optimizer;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueriesBenchmarkConfReader.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueriesBenchmarkConfReader.java
 
b/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueriesBenchmarkConfReader.java
index 8cbf203..7a92d1f 100644
--- 
a/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueriesBenchmarkConfReader.java
+++ 
b/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueriesBenchmarkConfReader.java
@@ -22,7 +22,7 @@ import static java.util.Objects.requireNonNull;
 
 import java.io.InputStream;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 import javax.xml.XMLConstants;
 import javax.xml.bind.JAXBContext;
 import javax.xml.bind.JAXBException;
@@ -39,7 +39,7 @@ import com.google.common.base.Suppliers;
 /**
  * Unmarshalls instances of {@link QueriesBenchmarkConf}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public final class QueriesBenchmarkConfReader {
 
     // It is assumed the schema file is held within the root directory of the 
packaged jar.

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueryBenchmark.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueryBenchmark.java
 
b/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueryBenchmark.java
index e24ac54..8cf05f1 100644
--- 
a/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueryBenchmark.java
+++ 
b/extras/rya.benchmark/src/main/java/org/apache/rya/benchmark/query/QueryBenchmark.java
@@ -28,7 +28,7 @@ import java.util.List;
 import java.util.Optional;
 import java.util.concurrent.TimeUnit;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.log4j.ConsoleAppender;
 import org.apache.log4j.Level;
@@ -248,7 +248,7 @@ public class QueryBenchmark {
     /**
      * Executes an iteration of the benchmarked logic.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static final class QueryBenchmarkRun {
 
         private final SailConnection sailConn;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/SharedShellState.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/SharedShellState.java 
b/extras/rya.console/src/main/java/org/apache/rya/shell/SharedShellState.java
index e9ada65..508e65e 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/SharedShellState.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/SharedShellState.java
@@ -23,10 +23,10 @@ import static java.util.Objects.requireNonNull;
 import java.util.Objects;
 import java.util.concurrent.locks.ReentrantLock;
 
-import javax.annotation.Nullable;
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
-import javax.annotation.concurrent.ThreadSafe;
+import edu.umd.cs.findbugs.annotations.Nullable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
+// SEE RYA-211 import javax.annotation.concurrent.ThreadSafe;
 
 import com.google.common.base.Optional;
 
@@ -36,8 +36,8 @@ import 
org.apache.rya.api.client.accumulo.AccumuloConnectionDetails;
 /**
  * Holds values that are shared between the various Rya command classes.
  */
-@ThreadSafe
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ThreadSafe
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class SharedShellState {
     // The shared nature of this object means we shouldn't assume only a 
single thread is accessing it.
     private final ReentrantLock lock = new ReentrantLock();
@@ -161,8 +161,8 @@ public class SharedShellState {
     /**
      * Values that define the state of a Rya Shell.
      */
-    @Immutable
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @Immutable
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static final class ShellState {
         // Indicates the state of the shell.
         private final ConnectionState connectionState;
@@ -258,7 +258,7 @@ public class SharedShellState {
         /**
          * Builds instances of {@link ShellState}.
          */
-        @ParametersAreNonnullByDefault
+// SEE RYA-211         @ParametersAreNonnullByDefault
         public static class Builder {
             private ConnectionState connectionState;
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/util/ConnectorFactory.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/ConnectorFactory.java
 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/ConnectorFactory.java
index 9aaa402..f960530 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/ConnectorFactory.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/ConnectorFactory.java
@@ -20,7 +20,7 @@ package org.apache.rya.shell.util;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.AccumuloException;
 import org.apache.accumulo.core.client.AccumuloSecurityException;
@@ -32,7 +32,7 @@ import 
org.apache.accumulo.core.client.security.tokens.PasswordToken;
 /**
  * Creates {@link Connector}s that are linked to an instance of Accumulo.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class ConnectorFactory {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/util/InstanceNamesFormatter.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/InstanceNamesFormatter.java
 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/InstanceNamesFormatter.java
index c8fe791..c99cef0 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/InstanceNamesFormatter.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/InstanceNamesFormatter.java
@@ -22,12 +22,12 @@ import static java.util.Objects.requireNonNull;
 
 import java.util.List;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Pretty formats a list of Rya instance names.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class InstanceNamesFormatter {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/util/JLinePrompt.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/JLinePrompt.java 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/JLinePrompt.java
index caa19b2..472016d 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/JLinePrompt.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/JLinePrompt.java
@@ -23,7 +23,7 @@ import static java.util.Objects.requireNonNull;
 import java.io.IOException;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.springframework.beans.factory.annotation.Autowired;
 import org.springframework.security.util.FieldUtils;
@@ -38,7 +38,7 @@ import jline.console.ConsoleReader;
  * Provides access to the host {@link Shell}'s {@link ConsoleReader} and some
  * utility functions for using it.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public abstract class JLinePrompt {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/util/PasswordPrompt.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/PasswordPrompt.java
 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/PasswordPrompt.java
index db2913d..88b96ff 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/PasswordPrompt.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/PasswordPrompt.java
@@ -20,14 +20,14 @@ package org.apache.rya.shell.util;
 
 import java.io.IOException;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import jline.console.ConsoleReader;
 
 /**
  * A mechanism for prompting a user of the application for a password.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface PasswordPrompt {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/util/RyaDetailsFormatter.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/RyaDetailsFormatter.java
 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/RyaDetailsFormatter.java
index fc85bb0..fbb9837 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/RyaDetailsFormatter.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/RyaDetailsFormatter.java
@@ -20,7 +20,7 @@ package org.apache.rya.shell.util;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import com.google.common.base.Optional;
 import com.google.common.collect.ImmutableMap;
@@ -32,7 +32,7 @@ import 
org.apache.rya.api.instance.RyaDetails.PCJIndexDetails.PCJDetails;
 /**
  * Formats an instance of {@link RyaDetails}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class RyaDetailsFormatter {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.console/src/main/java/org/apache/rya/shell/util/SparqlPrompt.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/SparqlPrompt.java 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/SparqlPrompt.java
index e1cb390..4b29d28 100644
--- 
a/extras/rya.console/src/main/java/org/apache/rya/shell/util/SparqlPrompt.java
+++ 
b/extras/rya.console/src/main/java/org/apache/rya/shell/util/SparqlPrompt.java
@@ -20,14 +20,14 @@ package org.apache.rya.shell.util;
 
 import java.io.IOException;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import jline.console.ConsoleReader;
 
 /**
  * A mechanism for prompting a user of the application for a SPARQL string.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface SparqlPrompt {
 
     /**
@@ -42,7 +42,7 @@ public interface SparqlPrompt {
     /**
      * Prompts a user for a SPARQL query using a JLine {@link ConsoleReader}.
      */
-    @ParametersAreNonnullByDefault
+// SEE RYA-211     @ParametersAreNonnullByDefault
     public static class JLineSparqlPrompt extends JLinePrompt implements 
SparqlPrompt {
 
         @Override

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PcjMetadata.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PcjMetadata.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PcjMetadata.java
index 90ca83c..75bde6c 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PcjMetadata.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PcjMetadata.java
@@ -24,8 +24,8 @@ import static 
com.google.common.base.Preconditions.checkNotNull;
 import java.util.Collection;
 import java.util.Objects;
 
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
 
 import org.apache.commons.lang3.builder.EqualsBuilder;
 import org.apache.rya.indexing.pcj.storage.accumulo.VariableOrder;
@@ -35,8 +35,8 @@ import com.google.common.collect.ImmutableSet;
 /**
  * Metadata that is stored in a PCJ table about the results that are stored 
within it.
  */
-@Immutable
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @Immutable
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public final class PcjMetadata {
     private final String sparql;
     private final long cardinality;

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PrecomputedJoinStorage.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PrecomputedJoinStorage.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PrecomputedJoinStorage.java
index caaa8b6..9f0dc5c 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PrecomputedJoinStorage.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/PrecomputedJoinStorage.java
@@ -22,7 +22,7 @@ import java.util.Collection;
 import java.util.Iterator;
 import java.util.List;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.rya.indexing.pcj.storage.accumulo.VisibilityBindingSet;
 import org.openrdf.query.BindingSet;
@@ -30,7 +30,7 @@ import org.openrdf.query.BindingSet;
 /**
  * Functions that create and maintain the PCJ tables that are used by Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface PrecomputedJoinStorage {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjSerializer.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjSerializer.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjSerializer.java
index 77f70b1..249c0d2 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjSerializer.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjSerializer.java
@@ -30,7 +30,7 @@ import java.util.LinkedList;
 import java.util.List;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openrdf.model.Value;
 import org.openrdf.query.Binding;
@@ -49,7 +49,7 @@ import org.apache.rya.api.resolver.RyaTypeResolverException;
  * Converts {@link BindingSet}s to byte[]s and back again. The bytes do not
  * include the binding names and are ordered with a {@link VariableOrder}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloPcjSerializer implements BindingSetConverter<byte[]> {
 
     @Override

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjStorage.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjStorage.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjStorage.java
index bc615d1..8463c43 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjStorage.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/AccumuloPcjStorage.java
@@ -25,7 +25,7 @@ import java.util.Collection;
 import java.util.List;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.AccumuloException;
 import org.apache.accumulo.core.client.AccumuloSecurityException;
@@ -50,7 +50,7 @@ import 
org.apache.rya.api.instance.RyaDetailsUpdater.RyaDetailsMutator.CouldNotA
 /**
  * An Accumulo backed implementation of {@link PrecomputedJoinStorage}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class AccumuloPcjStorage implements PrecomputedJoinStorage {
 
     // Factories that are used to create new PCJs.

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetConverter.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetConverter.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetConverter.java
index 9a52531..6c2e056 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetConverter.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetConverter.java
@@ -18,7 +18,7 @@
  */
 package org.apache.rya.indexing.pcj.storage.accumulo;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openrdf.query.Binding;
 import org.openrdf.query.BindingSet;
@@ -30,7 +30,7 @@ import org.openrdf.query.BindingSet;
  *
  * @param <T> Defines the type of model {@link BindingSet}s will be converted 
into/from.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface BindingSetConverter<T> {
 
    /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetStringConverter.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetStringConverter.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetStringConverter.java
index e73870a..b1ea054 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetStringConverter.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/BindingSetStringConverter.java
@@ -25,7 +25,7 @@ import java.util.ArrayList;
 import java.util.List;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openrdf.model.URI;
 import org.openrdf.model.Value;
@@ -46,7 +46,7 @@ import org.apache.rya.api.resolver.RdfToRyaConversions;
  * Converts {@link BindingSet}s to Strings and back again. The Strings do not
  * include the binding names and are ordered with a {@link VariableOrder}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class BindingSetStringConverter implements BindingSetConverter<String> {
 
     public static final String BINDING_DELIM = ":::";

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTableNameFactory.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTableNameFactory.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTableNameFactory.java
index 588792b..19fb8ba 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTableNameFactory.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTableNameFactory.java
@@ -20,13 +20,13 @@ package org.apache.rya.indexing.pcj.storage.accumulo;
 
 import static java.util.Objects.requireNonNull;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 /**
  * Creates Accumulo table names that may be recognized by Rya as a table that
  * holds the results of a Precomputed Join.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class PcjTableNameFactory {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTables.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTables.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTables.java
index c29cd2e..a883ed0 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTables.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjTables.java
@@ -30,7 +30,7 @@ import java.util.List;
 import java.util.Map.Entry;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.AccumuloException;
 import org.apache.accumulo.core.client.AccumuloSecurityException;
@@ -74,7 +74,7 @@ import com.google.common.base.Optional;
 /**
  * Functions that create and maintain the PCJ tables that are used by Rya.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class PcjTables {
     private static final Logger log = Logger.getLogger(PcjTables.class);
 

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjVarOrderFactory.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjVarOrderFactory.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjVarOrderFactory.java
index 00b4c99..75b53d2 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjVarOrderFactory.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/PcjVarOrderFactory.java
@@ -20,7 +20,7 @@ package org.apache.rya.indexing.pcj.storage.accumulo;
 
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openrdf.query.MalformedQueryException;
 
@@ -28,7 +28,7 @@ import org.openrdf.query.MalformedQueryException;
  * Create alternative variable orders for a SPARQL query based on
  * the original ordering of its results.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public interface PcjVarOrderFactory {
 
     /**

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ScannerBindingSetIterator.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ScannerBindingSetIterator.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ScannerBindingSetIterator.java
index b641070..e476dd6 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ScannerBindingSetIterator.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ScannerBindingSetIterator.java
@@ -23,7 +23,7 @@ import static java.util.Objects.requireNonNull;
 import java.util.Iterator;
 import java.util.Map.Entry;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.apache.accumulo.core.client.Scanner;
 import org.apache.accumulo.core.data.Key;
@@ -35,7 +35,7 @@ import org.openrdf.query.BindingSet;
  * Iterates over the results of a {@link Scanner} assuming the results are
  * binding sets that can be converted using a {@link AccumuloPcjSerializer}.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class ScannerBindingSetIterator implements Iterator<BindingSet> {
 
     private static final AccumuloPcjSerializer converter = new 
AccumuloPcjSerializer();

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ShiftVarOrderFactory.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ShiftVarOrderFactory.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ShiftVarOrderFactory.java
index b4ba348..dedeb77 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ShiftVarOrderFactory.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/ShiftVarOrderFactory.java
@@ -24,7 +24,7 @@ import java.util.HashSet;
 import java.util.List;
 import java.util.Set;
 
-import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
 
 import org.openrdf.query.MalformedQueryException;
 import org.openrdf.query.parser.sparql.SPARQLParser;
@@ -35,7 +35,7 @@ import com.google.common.collect.Lists;
  * Shifts the variables to the left so that each variable will appear at
  * the head of the varOrder once.
  */
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public class ShiftVarOrderFactory implements PcjVarOrderFactory {
 
     @Override

http://git-wip-us.apache.org/repos/asf/incubator-rya/blob/a0a871fc/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/VariableOrder.java
----------------------------------------------------------------------
diff --git 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/VariableOrder.java
 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/VariableOrder.java
index ef88d8c..7e903bc 100644
--- 
a/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/VariableOrder.java
+++ 
b/extras/rya.indexing.pcj/src/main/java/org/apache/rya/indexing/pcj/storage/accumulo/VariableOrder.java
@@ -23,8 +23,8 @@ import static 
com.google.common.base.Preconditions.checkNotNull;
 import java.util.Collection;
 import java.util.Iterator;
 
-import javax.annotation.ParametersAreNonnullByDefault;
-import javax.annotation.concurrent.Immutable;
+// SEE RYA-211 import javax.annotation.ParametersAreNonnullByDefault;
+// SEE RYA-211 import javax.annotation.concurrent.Immutable;
 
 import org.openrdf.query.BindingSet;
 
@@ -36,8 +36,8 @@ import com.google.common.collect.ImmutableList;
  * specify the order {@link Binding}s within the set are serialized to 
Accumulo.
  * This order effects which rows a prefix scan will hit.
  */
-@Immutable
-@ParametersAreNonnullByDefault
+// SEE RYA-211 @Immutable
+// SEE RYA-211 @ParametersAreNonnullByDefault
 public final class VariableOrder implements Iterable<String> {
 
     public static final String VAR_ORDER_DELIM = ";";


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