--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/create_input_list.py	Thu Jun 02 11:34:51 2016 -0400
@@ -0,0 +1,16 @@
+import argparse
+
+
+description = ("This script will create a input list file for input into FastUniq")
+
+parser = argparse.ArgumentParser()
+parser.add_argument("--fastq_R1", nargs="*", help="Path to Fastq file containing R1 reads")
+parser.add_argument("--fastq_R2", nargs="*", help="Path to Fastq file containing R2 reads")
+parser.add_argument("--output_list", help="List containing file paths")
+args = parser.parse_args()
+
+template = "{fastq_R1}\n{fastq_R2}\n"
+with open(args.output_list, "w") as output:
+    for fastq_R1, fastq_R2 in zip(args.fastq_R1, args.fastq_R2):
+        list_line = template.format(fastq_R1=fastq_R1, fastq_R2=fastq_R2)
+        output.write(list_line)
\ No newline at end of file