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PyUMI fails with an unreadable error #114

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nsyzrantsev opened this issue Jun 25, 2024 · 0 comments

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invalid steps/pyumi

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nsyzrantsev commented Jun 25, 2024

Print a normal error message if not a single read has been matched with barcode pattern.

pyigmap/bin/pyumi/run.py

Lines 46 to 49 in c2285b2

    
           processed_fq1, processed_fq2, total_reads_count = extract_umi(fq12_chunks, 
        
                                                                         fq1_pattern, 
        
                                                                         fq2_pattern, 
        
                                                                         args.find_in_reverse_complement)

if not processed_fq1.size or not processed_fq2.size:
  "Something happend wrong with parsing barcode from FASTQ..."

nsyzrantsev added invalid steps/pyumi labels

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