erange version 4.0a dev release

[erange.git] / docs / regionCounts.sh

diff --git a/docs/regionCounts.sh b/docs/regionCounts.sh
index 13c60ad4bb6fd58fed267ff0ffb9772e728bb562..8875513266f785ee537137ec841c790d6d014e04 100644 (file)
--- a/docs/regionCounts.sh
+++ b/docs/regionCounts.sh
@@ -3,7 +3,7 @@ echo 'regionCounts.sh: version 1.0'
 
 cachepages=""
 if [ $# -eq 3 ]; then
-    cachepages="-cache "$3
+    cachepages="--cache "$3
 fi
 
 if [ $# -lt 2 ]; then
@@ -19,7 +19,7 @@ else
                prefix=`echo $line | cut -f 1 -d ','`
                rds=`echo $line | cut -f 2 -d ','`
                if [ -e $rds ]; then
-                       python $ERANGEPATH/regionCounts.py $1 $rds $prefix.partcount -force -nomerge -rpkm $cachepages
+                       python $ERANGEPATH/regionCounts.py $1 $rds $prefix.partcount --force --nomerge --rpkm $cachepages
                else
                        echo "could not find $rds - skipping"
                        python $ERANGEPATH/recordLog.py regionCounts.log regionCounts.sh "could not find $rds - skipping"