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spades utf-8 error

Nov 24th, 2021
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  1. == Error == utf-8
  2.  
  3. Traceback (most recent call last):
  4. File "/usr/local/share/spades/spades_pipeline/support.py", line 142, in check_file_not_empty
  5. if next(reads_iterator, None) is None:
  6. File "/usr/local/share/spades/spades_pipeline/common/SeqIO.py", line 119, in parse_fastq
  7. while not reader.EOF():
  8. File "/usr/local/share/spades/spades_pipeline/common/SeqIO.py", line 69, in EOF
  9. return self.Top() == ""
  10. File "/usr/local/share/spades/spades_pipeline/common/SeqIO.py", line 36, in Top
  11. self.FillCash()
  12. File "/usr/local/share/spades/spades_pipeline/common/SeqIO.py", line 30, in FillCash
  13. self.cash = self.handler.readline()
  14. File "/usr/local/lib/python3.9/codecs.py", line 705, in readline
  15. return self.reader.readline(size)
  16. File "/usr/local/lib/python3.9/codecs.py", line 558, in readline
  17. data = self.read(readsize, firstline=True)
  18. File "/usr/local/lib/python3.9/codecs.py", line 504, in read
  19. newchars, decodedbytes = self.decode(data, self.errors)
  20. UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte
  21.  
  22.  
  23. In case you have troubles running SPAdes, you can write to [email protected]
  24. or report an issue on our GitHub repository github.com/ablab/spades
  25. Please provide us with params.txt and spades.log files from the output directory.
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