diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/SSGGenotypeCall.java b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/SSGGenotypeCall.java
index 5ec7059cd..c71c66385 100644
--- a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/SSGGenotypeCall.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/SSGGenotypeCall.java
@@ -50,7 +50,7 @@ public class SSGGenotypeCall implements GenotypeCall, GenotypeOutput {
         calculateBestNext(discoveryMode, genotypes, likelihoods, refStr);
 
         this.readDepth = pileup.getReads().size();
-        rmsMapping = Math.sqrt(calculateRMS(pileup) / readDepth);
+        rmsMapping = calculateRMS(pileup);
     }
 
 
diff --git a/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFHeader.java b/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFHeader.java
index cc0682b14..f75e2f6d9 100644
--- a/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFHeader.java
+++ b/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFHeader.java
@@ -41,7 +41,7 @@ public class VCFHeader {
     private boolean hasGenotypingData = false;
 
     /** the current vcf version we support. */
-    private static final String VCF_VERSION = "VCFv3.2";
+    private static final String VCF_VERSION = "VCRv3.2";
 
     /**
      * create a VCF header, given a list of meta data and auxillary tags
diff --git a/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFValidator.java b/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFValidator.java
index 13c3ee8e8..30b875072 100644
--- a/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFValidator.java
+++ b/java/src/org/broadinstitute/sting/utils/genotype/vcf/VCFValidator.java
@@ -17,7 +17,7 @@ import java.util.TreeMap;
  */
 public class VCFValidator {
 
-    private static final String VCF_VERSION = "VCFv3.2";
+    private static final String VCF_VERSION = "VCRv3.2";
 
     /**
      * about as simple as things come right now.  We open the file, process all the entries in the file,
@@ -114,9 +114,10 @@ public class VCFValidator {
     public static void printUsage() {
         System.err.println("VCF validator (VCF Version " + VCF_VERSION + ")");
         System.err.println("Usage:");
-        System.err.println("vcfvalidator <-A> <fille.vcf>");
+        System.err.println("vcfvalidator <-A> <file.vcf>");
         System.err.println("");
-        System.err.println("\t-A\tTell the validator to attempt to catch all the problems, and not stop at the first.  Some may be too fatal to continue.");
+        System.err.println("\t<-A>\tTell the validator to attempt to catch all the problems, and not stop at the first.  Some may be too fatal to continue.");
+        System.err.println("\t<file.vcf>\tThe vcf file.  Required.");
         System.err.println("");
     }
 
diff --git a/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFHeaderTest.java b/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFHeaderTest.java
index b99a865d4..fb94d085c 100644
--- a/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFHeaderTest.java
+++ b/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFHeaderTest.java
@@ -29,7 +29,7 @@ public class VCFHeaderTest extends BaseTest {
         for (VCFHeader.HEADER_FIELDS field : VCFHeader.HEADER_FIELDS.values()) {
             headerFields.add(field);
         }
-        metaData.put("format","VCFv3.2");
+        metaData.put("format","VCRv3.2");
         metaData.put("two","2");
         additionalColumns.add("extra1");
         additionalColumns.add("extra2");
diff --git a/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFWriterTest.java b/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFWriterTest.java
index 72b15f5dc..1ab7a8c4d 100644
--- a/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFWriterTest.java
+++ b/java/test/org/broadinstitute/sting/utils/genotype/vcf/VCFWriterTest.java
@@ -49,7 +49,7 @@ public class VCFWriterTest extends BaseTest {
         for (VCFHeader.HEADER_FIELDS field : VCFHeader.HEADER_FIELDS.values()) {
             headerFields.add(field);
         }
-        metaData.put("format", "VCFv3.2"); // required 
+        metaData.put("format", "VCRv3.2"); // required
         metaData.put("two", "2");
         additionalColumns.add("FORMAT");
         additionalColumns.add("extra1");