Fix getRef use of new spike values

workflow/rna-seq.nf

@@ -1375,7 +1375,7 @@ process uploadExecutionRun {
   then
     genomeName=\$(echo GRCm${refMoVersion})
   fi
-  if [ "${spike}" == "yes" ]
+  if [ "${spike}" == "true" ]
   then
     genomeName=\$(echo \${genomeName}-S)
   fi
@@ -1480,10 +1480,10 @@ process getRef {
       echo -e "LOG: ERROR - References could not be set!\nSpecies reference found: ${species}" >> ${repRID}.getRef.log
       exit 1
     fi
-    if [ "${spike}" == "yes" ]
+    if [ "${spike}" == "true" ]
     then
       references=\$(echo \${reference}-S)
-    elif [ "${spike}" == "no" ]
+    elif [ "${spike}" == "false" ]
     then
       reference=\$(echo \${references})
     fi