fastqc has different behavior on .fq or .fastq file

Snakemake/IMAGE_calling/Snakefile

@@ -80,13 +80,13 @@ for IDX,line in enumerate(open(config["reads"], "r")):
         if not  PLATEFORM in  ["ILLUMINA", "SOLID", "LS454", "HELICOS", "PACBIO"]:
         	raise Exception(PLATEFORM + " is not a valid sequencer type\n")
         
-        all_files.append(os.path.basename(R1).replace('.gz', ''))
+        all_files.append(os.path.basename(R1).replace('.gz', '').replace('.fastq', ''))
         prefix=os.path.basename(R1).replace('.fastq.gz','').replace('.fq.gz', '').replace('_R1', '').replace('_R', '').replace('.R1', '').replace('.R', '')
         all_reads[prefix] = {"idx":IDX, "name" : NAME, "reads":[R1], "plateform" : PLATEFORM}
         
         if not "None" in R2:
             all_reads[prefix]["reads"].append(R2)
-            all_files.append(os.path.basename(R2).replace('.gz', ''))
+            all_files.append(os.path.basename(R2).replace('.gz', '').replace('.fastq', ''))
         
         all_samples.setdefault(NAME, [])
         all_samples[NAME].append(os.path.basename(prefix))