diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CallableLoci.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CallableLoci.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CallableLoci.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CallableLoci.java
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CompareCallableLoci.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CompareCallableLoci.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CompareCallableLoci.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/CompareCallableLoci.java
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/coverage/GCContentByInterval.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/GCContentByInterval.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/coverage/GCContentByInterval.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/coverage/GCContentByInterval.java
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ErrorRatePerCycle.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ErrorRatePerCycle.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ErrorRatePerCycle.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ErrorRatePerCycle.java
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadGroupProperties.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadGroupProperties.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadGroupProperties.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadGroupProperties.java
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadLengthDistribution.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadLengthDistribution.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadLengthDistribution.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/diagnostics/ReadLengthDistribution.java
diff --git a/protected/java/src/org/broadinstitute/sting/gatk/walkers/fasta/FastaStats.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/fasta/FastaStats.java
similarity index 100%
rename from protected/java/src/org/broadinstitute/sting/gatk/walkers/fasta/FastaStats.java
rename to public/java/src/org/broadinstitute/sting/gatk/walkers/fasta/FastaStats.java