diff --git a/tool_collections/vcftools/vcftools_compare/vcftools_compare.xml b/tool_collections/vcftools/vcftools_compare/vcftools_compare.xml
index 29850bd4..044b22fd 100644
--- a/tool_collections/vcftools/vcftools_compare/vcftools_compare.xml
+++ b/tool_collections/vcftools/vcftools_compare/vcftools_compare.xml
@@ -2,7 +2,7 @@
multiple VCF datasets
- tabix
+ tabix
vcftools
@@ -11,13 +11,13 @@
#set dataset_names = []
#for $input in $inputs:
## Sort file.
- sort -k1,1 -k2,2n ${input.file} > ${input.name}.vcf.sorted ;
+ sort -k1,1 -k2,2n '${input.file}' > '${input.name}.vcf.sorted' ;
## Compress.
- bgzip ${input.name}.vcf.sorted ;
+ bgzip '${input.name}.vcf.sorted' ;
## Index.
- tabix -p vcf ${input.name}.vcf.sorted.gz ;
+ tabix -p vcf '${input.name}.vcf.sorted.gz' ;
#silent dataset_names.append( str($input.name) + '.vcf.sorted.gz' )
#end for