diff --git a/tools/cover.sh b/tools/cover.sh
index 76b770b0b9684be1166ae8ef863e1d47703ff19e..adb610e3a80346c5a912d9cb972d3eb72c8ecfc0 100755
--- a/tools/cover.sh
+++ b/tools/cover.sh
@@ -15,6 +15,23 @@ OUTPUT_BLACKLIST_FILE=$6        # output file with list of functions to blacklis
 
 CANDIDATE_FNS_PRE_LIBC=`dirname $6`/p1.candidates.prelibc
 
+
+$SECURITY_TRANSFORMS_HOME/tools/cover/cover $ORIGINAL_BINARY $ANNOTATION_FILE $EXECUTED_ADDRESS_FILE $OUTPUT_COVERAGE_FILE
+status=$?
+cp $FILTER_FILE $OUTPUT_BLACKLIST_FILE
+cat $OUTPUT_COVERAGE_FILE | cut -f1 -d" " > $CANDIDATE_FNS_PRE_LIBC
+
+if [ ! $status -eq 0 ]; then
+#	cp $FILTER_FILE $OUTPUT_BLACKLIST_FILE
+	return 1
+fi
+
+return 0
+
+#below is a relic from when PN could not take ina  coverage file, it is left here
+#as it is uncertain as to whether we do want to filter functions at this level
+#in this scenario yet.
+
 #
 # Prune out functions that do not have sufficient coverage
 # Any function whose coverage metric starts with 0.0, e.g. 0.09, 0.0123, is pruned out
@@ -23,25 +40,20 @@ CANDIDATE_FNS_PRE_LIBC=`dirname $6`/p1.candidates.prelibc
 # Yes, this is a hack... but it will do for now until we get a more sophisticated definition of coverage
 #
 
-$SECURITY_TRANSFORMS_HOME/tools/cover/cover $ORIGINAL_BINARY $ANNOTATION_FILE $EXECUTED_ADDRESS_FILE $OUTPUT_COVERAGE_FILE
-if [ ! $? -eq 0 ]; then
-	cp $FILTER_FILE $OUTPUT_BLACKLIST_FILE
-	return 1
-fi
-
-if [ ! -f $OUTPUT_COVERAGE_FILE ]; then
-	cp $FILTER_FILE $OUTPUT_BLACKLIST_FILE
-	return 1
-fi
+#if [ ! -f $OUTPUT_COVERAGE_FILE ]; then
+#	cp $FILTER_FILE $OUTPUT_BLACKLIST_FILE
+#	return 1
+#fi
 
-grep -v "0\.000" $OUTPUT_COVERAGE_FILE | cut -f1 -d" " > $CANDIDATE_FNS_PRE_LIBC
-grep  "0\.000" $OUTPUT_COVERAGE_FILE | cut -f1 -d" " > $OUTPUT_BLACKLIST_FILE
+#cat $OUTPUT_COVERAGE_FILE | cut -f1 -d" ">$CANDIDATE_FNS_PRE_LIBC
+#grep -v "0\.000" $OUTPUT_COVERAGE_FILE | cut -f1 -d" " > $CANDIDATE_FNS_PRE_LIBC
+#grep  "0\.000" $OUTPUT_COVERAGE_FILE | cut -f1 -d" " > $OUTPUT_BLACKLIST_FILE
 
 # Filter out functions that:
 #   1. are not sufficiently covered
 #   2. are libc function
-cat $FILTER_FILE >> $OUTPUT_BLACKLIST_FILE
-sort $OUTPUT_BLACKLIST_FILE | uniq > tmp.$$
-mv tmp.$$ $OUTPUT_BLACKLIST_FILE
+#cat $FILTER_FILE >> $OUTPUT_BLACKLIST_FILE
+#sort $OUTPUT_BLACKLIST_FILE | uniq > tmp.$$
+#mv tmp.$$ $OUTPUT_BLACKLIST_FILE
 
-return 0
+#return 0