diff --git a/public/VectorPairHMM/src/main/c++/Makefile b/public/VectorPairHMM/src/main/c++/Makefile
index 7296b7026..354bca0bb 100644
--- a/public/VectorPairHMM/src/main/c++/Makefile
+++ b/public/VectorPairHMM/src/main/c++/Makefile
@@ -1,26 +1,26 @@
-/*Copyright (c) 2012 The Broad Institute
+#Copyright (c) 2012 The Broad Institute
 
-*Permission is hereby granted, free of charge, to any person
-*obtaining a copy of this software and associated documentation
-*files (the "Software"), to deal in the Software without
-*restriction, including without limitation the rights to use,
-*copy, modify, merge, publish, distribute, sublicense, and/or sell
-*copies of the Software, and to permit persons to whom the
-*Software is furnished to do so, subject to the following
-*conditions:
+#Permission is hereby granted, free of charge, to any person
+#obtaining a copy of this software and associated documentation
+#files (the "Software"), to deal in the Software without
+#restriction, including without limitation the rights to use,
+#copy, modify, merge, publish, distribute, sublicense, and/or sell
+#copies of the Software, and to permit persons to whom the
+#Software is furnished to do so, subject to the following
+#conditions:
 
-*The above copyright notice and this permission notice shall be
-*included in all copies or substantial portions of the Software.
+#The above copyright notice and this permission notice shall be
+#included in all copies or substantial portions of the Software.
 
-*THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
-*EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
-*OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
-*NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
-*HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
-*WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
-*FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR
-*THE USE OR OTHER DEALINGS IN THE SOFTWARE.
-*/
+#THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+#EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
+#OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+#NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
+#HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
+#WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
+#FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR
+#THE USE OR OTHER DEALINGS IN THE SOFTWARE.
+#
 
 
 #OMPCFLAGS=-fopenmp
diff --git a/public/sting-utils/src/main/resources/org/broadinstitute/sting/utils/pairhmm/libVectorLoglessPairHMM.so b/public/sting-utils/src/main/resources/org/broadinstitute/sting/utils/pairhmm/libVectorLoglessPairHMM.so
index 17cec8be4..2620557f0 100644
Binary files a/public/sting-utils/src/main/resources/org/broadinstitute/sting/utils/pairhmm/libVectorLoglessPairHMM.so and b/public/sting-utils/src/main/resources/org/broadinstitute/sting/utils/pairhmm/libVectorLoglessPairHMM.so differ