Bump guava dependency.

pom.xml

@@ -141,7 +141,7 @@
     <dependency>
       <groupId>com.google.guava</groupId>
       <artifactId>guava</artifactId>
-      <version>18.0</version>
+      <version>19.0</version>
     </dependency>
     <dependency>
       <groupId>gov.nist.math.jama</groupId>
@@ -343,6 +343,13 @@
         <groupId>org.apache.maven.plugins</groupId>
         <artifactId>maven-jar-plugin</artifactId>
         <version>2.6</version>
+        <executions>
+          <execution>
+            <goals>
+              <goal>test-jar</goal>
+            </goals>
+          </execution>
+        </executions>
       </plugin>
 
     </plugins>

src/main/java/com/google/cloud/genomics/dataflow/pipelines/IdentifyPrivateVariants.java

@@ -19,7 +19,6 @@
 import com.google.cloud.dataflow.sdk.options.Description;
 import com.google.cloud.dataflow.sdk.options.PipelineOptionsFactory;
 import com.google.cloud.dataflow.sdk.options.Validation.Required;
-import com.google.cloud.dataflow.sdk.repackaged.com.google.common.collect.ImmutableSet;
 import com.google.cloud.dataflow.sdk.transforms.Create;
 import com.google.cloud.dataflow.sdk.transforms.DoFn;
 import com.google.cloud.dataflow.sdk.transforms.ParDo;
@@ -34,6 +33,7 @@
 import com.google.common.base.CharMatcher;
 import com.google.common.base.Joiner;
 import com.google.common.base.Splitter;
+import com.google.common.collect.ImmutableSet;
 import com.google.common.io.Files;
 import com.google.genomics.v1.StreamVariantsRequest;
 import com.google.genomics.v1.Variant;
@@ -149,7 +149,7 @@ public static void main(String[] args) throws IOException, GeneralSecurityExcept
         ImmutableSet
             .<String>builder()
             .addAll(
-                Splitter.on(CharMatcher.BREAKING_WHITESPACE).omitEmptyStrings().trimResults()
+                Splitter.on(CharMatcher.breakingWhitespace()).omitEmptyStrings().trimResults()
                     .split(fileContents)).build();
     LOG.info("The pipeline will identify and write to Cloud Storage variants "
         + "private to " + callSetIds.size() + " genomes with callSetIds: " + callSetIds);

src/main/java/com/google/cloud/genomics/dataflow/pipelines/ShardedBAMWriting.java

@@ -13,7 +13,6 @@
  */
 package com.google.cloud.genomics.dataflow.pipelines;
 
-import com.google.api.client.repackaged.com.google.common.base.Strings;
 import com.google.api.services.storage.Storage;
 import com.google.cloud.dataflow.sdk.Pipeline;
 import com.google.cloud.dataflow.sdk.coders.Coder;
@@ -45,6 +44,7 @@
 import com.google.cloud.genomics.utils.ShardUtils;
 import com.google.cloud.genomics.utils.ShardUtils.SexChromosomeFilter;
 import com.google.common.base.Preconditions;
+import com.google.common.base.Strings;
 import com.google.common.collect.Lists;
 import com.google.genomics.v1.Read;
 import com.google.genomics.v1.StreamReadsRequest;

src/main/java/com/google/cloud/genomics/dataflow/utils/GCSOutputOptions.java

@@ -13,11 +13,11 @@
  */
 package com.google.cloud.genomics.dataflow.utils;
 
-import com.google.api.client.repackaged.com.google.common.base.Strings;
 import com.google.cloud.dataflow.sdk.options.Description;
 import com.google.cloud.dataflow.sdk.options.Validation;
 import com.google.cloud.dataflow.sdk.util.gcsfs.GcsPath;
 import com.google.common.base.Preconditions;
+import com.google.common.base.Strings;
 
 /**
  * A common options class for all pipelines that write their analysis results to GCS files.