diff --git a/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/annotator/AlleleCountBySample.java b/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/annotator/AlleleCountBySample.java
index d8e30983e..2ce885d1c 100644
--- a/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/annotator/AlleleCountBySample.java
+++ b/protected/gatk-tools-protected/src/main/java/org/broadinstitute/gatk/tools/walkers/annotator/AlleleCountBySample.java
@@ -67,7 +67,6 @@ import org.broadinstitute.gatk.tools.walkers.genotyper.GenotypeAlleleCounts;
 import org.broadinstitute.gatk.tools.walkers.genotyper.GenotypeLikelihoodCalculator;
 import org.broadinstitute.gatk.tools.walkers.genotyper.GenotypeLikelihoodCalculators;
 import org.broadinstitute.gatk.utils.MathUtils;
-import org.broadinstitute.gatk.utils.Utils;
 import org.broadinstitute.gatk.utils.genotyper.PerReadAlleleLikelihoodMap;
 
 import java.util.Arrays;
@@ -121,8 +120,8 @@ public final class AlleleCountBySample extends GenotypeAnnotation {
             AC[alleleIndex - 1] = alleleCount;
             AF[alleleIndex - 1] = ((double) alleleCount) / (double) ploidy;
         }
-        gb.attribute(VCFConstants.MLE_PER_SAMPLE_ALLELE_COUNT_KEY, Utils.asList(AC));
-        gb.attribute(VCFConstants.MLE_PER_SAMPLE_ALLELE_FRACTION_KEY, Utils.asList(AF));
+        gb.attribute(VCFConstants.MLE_PER_SAMPLE_ALLELE_COUNT_KEY, AC);
+        gb.attribute(VCFConstants.MLE_PER_SAMPLE_ALLELE_FRACTION_KEY, AF);
     }
 
     @Override
diff --git a/public/gatk-root/pom.xml b/public/gatk-root/pom.xml
index 36f2b2256..928b9d162 100644
--- a/public/gatk-root/pom.xml
+++ b/public/gatk-root/pom.xml
@@ -44,8 +44,8 @@
         <test.listeners>org.testng.reporters.FailedReporter,org.testng.reporters.JUnitXMLReporter,org.broadinstitute.gatk.utils.TestNGTestTransformer,org.broadinstitute.gatk.utils.GATKTextReporter,org.uncommons.reportng.HTMLReporter</test.listeners>
 
         <!-- Version numbers for picard and htsjdk -->
-        <htsjdk.version>1.120.1620</htsjdk.version>
-        <picard.version>1.120.1579</picard.version>
+        <htsjdk.version>1.123.1658</htsjdk.version>
+        <picard.version>1.123.1620</picard.version>
     </properties>
 
     <!-- Dependency configuration (versions, etc.) -->
diff --git a/public/repo/picard/picard/1.120.1579/picard-1.120.1579.jar b/public/repo/picard/picard/1.123.1620/picard-1.123.1620.jar
similarity index 54%
rename from public/repo/picard/picard/1.120.1579/picard-1.120.1579.jar
rename to public/repo/picard/picard/1.123.1620/picard-1.123.1620.jar
index fa3fa36c0..2431ab8bb 100644
Binary files a/public/repo/picard/picard/1.120.1579/picard-1.120.1579.jar and b/public/repo/picard/picard/1.123.1620/picard-1.123.1620.jar differ
diff --git a/public/repo/picard/picard/1.120.1579/picard-1.120.1579.pom b/public/repo/picard/picard/1.123.1620/picard-1.123.1620.pom
similarity index 94%
rename from public/repo/picard/picard/1.120.1579/picard-1.120.1579.pom
rename to public/repo/picard/picard/1.123.1620/picard-1.123.1620.pom
index cca997246..7645771a0 100644
--- a/public/repo/picard/picard/1.120.1579/picard-1.120.1579.pom
+++ b/public/repo/picard/picard/1.123.1620/picard-1.123.1620.pom
@@ -3,13 +3,13 @@
     <modelVersion>4.0.0</modelVersion>
     <groupId>picard</groupId>
     <artifactId>picard</artifactId>
-    <version>1.120.1579</version>
+    <version>1.123.1620</version>
     <name>picard</name>
     <dependencies>
         <dependency>
             <groupId>samtools</groupId>
             <artifactId>htsjdk</artifactId>
-            <version>1.120.1620</version>
+            <version>1.123.1658</version>
         </dependency>
         <!-- TODO: Picard is using a custom zip with just ant's BZip2 classes. See also: http://www.kohsuke.org/bzip2 -->
         <dependency>
diff --git a/public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.jar b/public/repo/samtools/htsjdk/1.123.1658/htsjdk-1.123.1658.jar
similarity index 91%
rename from public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.jar
rename to public/repo/samtools/htsjdk/1.123.1658/htsjdk-1.123.1658.jar
index 8480ddc05..20803d294 100644
Binary files a/public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.jar and b/public/repo/samtools/htsjdk/1.123.1658/htsjdk-1.123.1658.jar differ
diff --git a/public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.pom b/public/repo/samtools/htsjdk/1.123.1658/htsjdk-1.123.1658.pom
similarity index 96%
rename from public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.pom
rename to public/repo/samtools/htsjdk/1.123.1658/htsjdk-1.123.1658.pom
index 04ebef8a3..858b68cd1 100644
--- a/public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.pom
+++ b/public/repo/samtools/htsjdk/1.123.1658/htsjdk-1.123.1658.pom
@@ -3,7 +3,7 @@
     <modelVersion>4.0.0</modelVersion>
     <groupId>samtools</groupId>
     <artifactId>htsjdk</artifactId>
-    <version>1.120.1620</version>
+    <version>1.123.1658</version>
     <name>htsjdk</name>
     <dependencies>
         <dependency>