--- a/testandplot.xml	Wed Jun 14 13:58:04 2017 -0400
+++ b/testandplot.xml	Wed Jun 14 15:20:32 2017 -0400
@@ -20,16 +20,16 @@
       featureids='${featureids}'
       rdatafile='${rdata}'
 
-      #set region1 = '","'.join( [ str( $r.region0 ) for $r in $regionssection.regions ] )
-      #set region2 = '","'.join( [ str( $r.region1 ) for $r in $regionssection.regions ] )
+      #set region1 = ','.join( [ str( $r.region0 ) for $r in $regionssection.regions ] )
+      #set region2 = ','.join( [ str( $r.region1 ) for $r in $regionssection.regions ] )
       region1='c(${region1})'
       region2='c(${region2})'
 
       features_subset='c(${featureslist})'
 
-      statistics='${conditionalstatistics.statistics}'
+      statistics="'${conditionalstatistics.statistics}'"
       #if $conditionalstatistics.statistics == "quantile":
-        #set probabilities = '","'.join( [ str( $p.qprob ) for $p in $conditionalstatistics.quantilesection.qprobabilities ] )
+        #set probabilities = ','.join( [ str( $p.qprob ) for $p in $conditionalstatistics.quantilesection.qprobabilities ] )
         testprobs='c(${probabilities})'
       #end if
 
@@ -38,9 +38,9 @@
       testalpha='${plotres.alpha}'
       average='${plotres.average}'
       size='${plotres.size}'
-      plottype='${plotres.conditionalplottype.plottype}'
-      #if $plotres.conditionalplottype.plottype == 'boxplot':
-        #set probs = '","'.join( [ str( $p.prob ) for $p in $plotres.conditionalplottype.probabilitiessection.probabilities ] )
+      plottype="'${plotres.conditionalplottype.plottype}'"
+      #if $plotres.conditionalplottype.plottype == "boxplot":
+        #set probs = ','.join( [ str( $p.prob ) for $p in $plotres.conditionalplottype.probabilitiessection.probabilities ] )
         #if $probs != "":
           probs='c(${plotres.conditionalplottype.probabilitiessection.prob0},${plotres.conditionalplottype.probabilitiessection.prob1},${plotres.conditionalplottype.probabilitiessection.prob2},${probs})'
         #else:
@@ -48,7 +48,7 @@
         #end if
       #end if
 
-      groupby='${plotsum.conditionalgroupby.groupby}'
+      groupby="'${plotsum.conditionalgroupby.groupby}'"
       #if $plotsum.conditionalgroupby.groupby == "test":
         summaryalpha='${plotsum.conditionalgroupby.testalphaplot}'
         only_significant='${plotsum.conditionalgroupby.testonlysig}'