Mercurial > repos > triasteran > ribogalaxy_umi_processing

diff UMI_riboseq_tool/UMI.py @ 16:cf1a0cbe5c34 draft

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author triasteran
date Fri, 30 Sep 2022 09:27:53 +0000
parents 0b5c3e35cddb
children
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line diff
--- a/UMI_riboseq_tool/UMI.py	Mon Jul 25 12:40:07 2022 +0000
+++ b/UMI_riboseq_tool/UMI.py	Fri Sep 30 09:27:53 2022 +0000
@@ -50,7 +50,7 @@
         print ('file is gzipped fastq')
         with gzip.open(pathToFastaFile, "rt") as handle:
             for i, record in enumerate(SeqIO.parse(handle, "fastq")):
-                process_fastq_record(record, output, UMI_5_prime_length=2, UMI_3_prime_length=5)
+                process_fastq_record(record, output, UMI_5_prime_length, UMI_3_prime_length)
 
     else: 
         for record in SeqIO.parse(pathToFastaFile, 'fastq'):