fix error with PE when checking of extension in STAR rules

workflow/rules/star_mapping_pass1.rules

@@ -45,7 +45,10 @@ rule star_mapping_pass1:
         star_mapping_pass1_logs
     shell:
         """ 
-        if [[ {input.fastq} == "*.gz"  ]]
+        tmp="{input}"
+        infiles=($tmp)
+
+        if [[ ${{infiles[0]}} == "*.gz"  ]]
         then
             STAR --genomeDir {params.index} \
                  --readFilesIn {input.fastq}  \

workflow/rules/star_mapping_pass2.rules

@@ -46,7 +46,10 @@ rule star_mapping_pass2:
         star_mapping_pass2_logs
     shell:
         """ 
-        if [[ {input.fastq} == "*.gz"  ]]
+        tmp="{input}"
+        infiles=($tmp)
+
+        if [[ ${{infiles[0]}} == "*.gz"  ]]
         then
             STAR --genomeDir {params.index} \
                  --readFilesIn {input.fastq}  \