check empty files

00-rules/filter_samples.smk

@@ -42,11 +42,7 @@ rule clean_pcrerr_samples:
     params:
          r=config["clean_pcrerr_samples"]["r"]         
     shell:
-        '''if [[ -s {input} ]] ;
-        then obiclean -r {params.r} {input} > {output} 2> {log} ;
-        else touch {output} 2> {log} ; fi
-        
-        '''
+        '''if [[ -s {input} ]]; then obiclean -r {params.r} {input} > {output} 2> {log}; else touch {output} 2> {log}; fi'''
 
 ### Remove sequence which are classified as 'internal' by obiclean
 rule rm_internal_samples: